2018-12-29 22:24:19 +01:00
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2018-12-31 12:03:35 +01:00
< meta property = "og:description" content = "Create a frequency table of a vector with items or a data frame . Supports quasiquotation and markdown for reports . The best practice is: data % & amp ; gt ; % freq ( var ) .
top_freq can be used to get the top/bottom n items of a frequency table, with counts as names." />
2018-12-29 22:24:19 +01:00
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< h1 > Frequency table< / h1 >
< div class = "hidden name" > < code > freq.Rd< / code > < / div >
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< p > Create a frequency table of a vector with items or a data frame. Supports quasiquotation and markdown for reports. The best practice is: < code > data %> % freq(var)< / code > .< br / >
< code > top_freq< / code > can be used to get the top/bottom < em > n< / em > items of a frequency table, with counts as names.< / p >
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< / div >
< pre class = "usage" > < span class = 'fu' > frequency_tbl< / span > (< span class = 'no' > x< / span > , < span class = 'no' > ...< / span > , < span class = 'kw' > sort.count< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > ,
< span class = 'kw' > nmax< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > < / span > (< span class = 'st' > "max.print.freq"< / span > ), < span class = 'kw' > na.rm< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > , < span class = 'kw' > row.names< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > ,
< span class = 'kw' > markdown< / span > < span class = 'kw' > =< / span > !< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/interactive' > interactive< / a > < / span > (), < span class = 'kw' > digits< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 2< / span > , < span class = 'kw' > quote< / span > < span class = 'kw' > =< / span > < span class = 'fl' > FALSE< / span > ,
< span class = 'kw' > header< / span > < span class = 'kw' > =< / span > !< span class = 'no' > markdown< / span > , < span class = 'kw' > title< / span > < span class = 'kw' > =< / span > < span class = 'kw' > NULL< / span > , < span class = 'kw' > na< / span > < span class = 'kw' > =< / span > < span class = 'st' > "< NA> "< / span > , < span class = 'kw' > droplevels< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > ,
< span class = 'kw' > sep< / span > < span class = 'kw' > =< / span > < span class = 'st' > " "< / span > , < span class = 'kw' > decimal.mark< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > < / span > (< span class = 'st' > "OutDec"< / span > ),
< span class = 'kw' > big.mark< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/ifelse' > ifelse< / a > < / span > (< span class = 'no' > decimal.mark< / span > < span class = 'kw' > !=< / span > < span class = 'st' > ","< / span > , < span class = 'st' > ","< / span > , < span class = 'st' > "."< / span > ))
< span class = 'fu' > freq< / span > (< span class = 'no' > x< / span > , < span class = 'no' > ...< / span > , < span class = 'kw' > sort.count< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > , < span class = 'kw' > nmax< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > < / span > (< span class = 'st' > "max.print.freq"< / span > ),
< span class = 'kw' > na.rm< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > , < span class = 'kw' > row.names< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > , < span class = 'kw' > markdown< / span > < span class = 'kw' > =< / span > !< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/interactive' > interactive< / a > < / span > (),
< span class = 'kw' > digits< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 2< / span > , < span class = 'kw' > quote< / span > < span class = 'kw' > =< / span > < span class = 'fl' > FALSE< / span > , < span class = 'kw' > header< / span > < span class = 'kw' > =< / span > !< span class = 'no' > markdown< / span > , < span class = 'kw' > title< / span > < span class = 'kw' > =< / span > < span class = 'kw' > NULL< / span > ,
< span class = 'kw' > na< / span > < span class = 'kw' > =< / span > < span class = 'st' > "< NA> "< / span > , < span class = 'kw' > droplevels< / span > < span class = 'kw' > =< / span > < span class = 'fl' > TRUE< / span > , < span class = 'kw' > sep< / span > < span class = 'kw' > =< / span > < span class = 'st' > " "< / span > ,
< span class = 'kw' > decimal.mark< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > < / span > (< span class = 'st' > "OutDec"< / span > ), < span class = 'kw' > big.mark< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/ifelse' > ifelse< / a > < / span > (< span class = 'no' > decimal.mark< / span > < span class = 'kw' > !=< / span >
< span class = 'st' > ","< / span > , < span class = 'st' > ","< / span > , < span class = 'st' > "."< / span > ))
< span class = 'fu' > top_freq< / span > (< span class = 'no' > f< / span > , < span class = 'no' > n< / span > )
< span class = 'fu' > header< / span > (< span class = 'no' > f< / span > , < span class = 'kw' > property< / span > < span class = 'kw' > =< / span > < span class = 'kw' > NULL< / span > )
< span class = 'co' > # S3 method for frequency_tbl< / span >
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/print' > print< / a > < / span > (< span class = 'no' > x< / span > , < span class = 'kw' > nmax< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > < / span > (< span class = 'st' > "max.print.freq"< / span > ,
< span class = 'kw' > default< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 15< / span > ), < span class = 'kw' > markdown< / span > < span class = 'kw' > =< / span > !< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/interactive' > interactive< / a > < / span > (), < span class = 'kw' > header< / span > < span class = 'kw' > =< / span > !< span class = 'no' > markdown< / span > ,
< span class = 'kw' > decimal.mark< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > < / span > (< span class = 'st' > "OutDec"< / span > ), < span class = 'kw' > big.mark< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/ifelse' > ifelse< / a > < / span > (< span class = 'no' > decimal.mark< / span > < span class = 'kw' > !=< / span >
< span class = 'st' > ","< / span > , < span class = 'st' > ","< / span > , < span class = 'st' > "."< / span > ), < span class = 'no' > ...< / span > )< / pre >
< h2 class = "hasAnchor" id = "arguments" > < a class = "anchor" href = "#arguments" > < / a > Arguments< / h2 >
< table class = "ref-arguments" >
< colgroup > < col class = "name" / > < col class = "desc" / > < / colgroup >
< tr >
< th > x< / th >
< td > < p > vector of any class or a < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/data.frame' > data.frame< / a > < / code > , < code > tibble< / code > (may contain a grouping variable) or < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/table' > table< / a > < / code > < / p > < / td >
< / tr >
< tr >
< th > ...< / th >
< td > < p > up to nine different columns of < code > x< / code > when < code > x< / code > is a < code > data.frame< / code > or < code > tibble< / code > , to calculate frequencies from - see Examples< / p > < / td >
< / tr >
< tr >
< th > sort.count< / th >
< td > < p > sort on count, i.e. frequencies. This will be < code > TRUE< / code > at default for everything except when using grouping variables.< / p > < / td >
< / tr >
< tr >
< th > nmax< / th >
< td > < p > number of row to print. The default, < code > 15< / code > , uses < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > ("max.print.freq")< / code > . Use < code > nmax = 0< / code > , < code > nmax = Inf< / code > , < code > nmax = NULL< / code > or < code > nmax = NA< / code > to print all rows.< / p > < / td >
< / tr >
< tr >
< th > na.rm< / th >
< td > < p > a logical value indicating whether < code > NA< / code > values should be removed from the frequency table. The header (if set) will always print the amount of < code > NA< / code > s.< / p > < / td >
< / tr >
< tr >
< th > row.names< / th >
< td > < p > a logical value indicating whether row indices should be printed as < code > 1:nrow(x)< / code > < / p > < / td >
< / tr >
< tr >
< th > markdown< / th >
< td > < p > a logical value indicating whether the frequency table should be printed in markdown format. This will print all rows (except when < code > nmax< / code > is defined) and is default behaviour in non-interactive R sessions (like when knitting RMarkdown files).< / p > < / td >
< / tr >
< tr >
< th > digits< / th >
< td > < p > how many significant digits are to be used for numeric values in the header (not for the items themselves, that depends on < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/options' > getOption< / a > ("digits")< / code > )< / p > < / td >
< / tr >
< tr >
< th > quote< / th >
< td > < p > a logical value indicating whether or not strings should be printed with surrounding quotes< / p > < / td >
< / tr >
< tr >
< th > header< / th >
< td > < p > a logical value indicating whether an informative header should be printed< / p > < / td >
< / tr >
< tr >
< th > title< / th >
< td > < p > text to show above frequency table, at default to tries to coerce from the variables passed to < code > x< / code > < / p > < / td >
< / tr >
< tr >
< th > na< / th >
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< td > < p > a character string that should be used to show empty (< code > NA< / code > ) values (only useful when < code > na.rm = FALSE< / code > )< / p > < / td >
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< / tr >
< tr >
< th > droplevels< / th >
< td > < p > a logical value indicating whether in factors empty levels should be dropped< / p > < / td >
< / tr >
< tr >
< th > sep< / th >
< td > < p > a character string to separate the terms when selecting multiple columns< / p > < / td >
< / tr >
< tr >
< th > decimal.mark< / th >
< td > < p > <!-- % -->
used for prettying (longish) numerical and complex sequences.
Passed to < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/formatc' > prettyNum< / a > < / code > : that help page explains the details.< / p > < / td >
< / tr >
< tr >
< th > big.mark< / th >
< td > < p > <!-- % -->
used for prettying (longish) numerical and complex sequences.
Passed to < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/formatc' > prettyNum< / a > < / code > : that help page explains the details.< / p > < / td >
< / tr >
< tr >
< th > f< / th >
< td > < p > a frequency table< / p > < / td >
< / tr >
< tr >
< th > n< / th >
< td > < p > number of top < em > n< / em > items to return, use -n for the bottom < em > n< / em > items. It will include more than < code > n< / code > rows if there are ties.< / p > < / td >
< / tr >
< tr >
< th > property< / th >
< td > < p > property in header to return this value directly< / p > < / td >
< / tr >
< / table >
< h2 class = "hasAnchor" id = "value" > < a class = "anchor" href = "#value" > < / a > Value< / h2 >
< p > A < code > data.frame< / code > (with an additional class < code > "frequency_tbl"< / code > ) with five columns: < code > item< / code > , < code > count< / code > , < code > percent< / code > , < code > cum_count< / code > and < code > cum_percent< / code > .< / p >
< h2 class = "hasAnchor" id = "details" > < a class = "anchor" href = "#details" > < / a > Details< / h2 >
< p > Frequency tables (or frequency distributions) are summaries of the distribution of values in a sample. With the `freq` function, you can create univariate frequency tables. Multiple variables will be pasted into one variable, so it forces a univariate distribution. This package also has a vignette available to explain the use of this function further, run < code > < a href = 'https://www.rdocumentation.org/packages/utils/topics/browseVignettes' > browseVignettes("AMR")< / a > < / code > to read it.< / p >
< p > For numeric values of any class, these additional values will all be calculated with < code > na.rm = TRUE< / code > and shown into the header:< / p > < ul >
< li > < p > Mean, using < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/mean' > mean< / a > < / code > < / p > < / li >
< li > < p > Standard Deviation, using < code > < a href = 'https://www.rdocumentation.org/packages/stats/topics/sd' > sd< / a > < / code > < / p > < / li >
< li > < p > Coefficient of Variation (CV), the standard deviation divided by the mean< / p > < / li >
< li > < p > Mean Absolute Deviation (MAD), using < code > < a href = 'https://www.rdocumentation.org/packages/stats/topics/mad' > mad< / a > < / code > < / p > < / li >
< li > < p > Tukey Five-Number Summaries (minimum, Q1, median, Q3, maximum), using < code > < a href = 'https://www.rdocumentation.org/packages/stats/topics/fivenum' > fivenum< / a > < / code > < / p > < / li >
< li > < p > Interquartile Range (IQR) calculated as < code > Q3 - Q1< / code > using the Tukey Five-Number Summaries, i.e. < strong > not< / strong > using the < code > < a href = 'https://www.rdocumentation.org/packages/stats/topics/quantile' > quantile< / a > < / code > function< / p > < / li >
< li > < p > Coefficient of Quartile Variation (CQV, sometimes called coefficient of dispersion), calculated as < code > (Q3 - Q1) / (Q3 + Q1)< / code > using the Tukey Five-Number Summaries< / p > < / li >
< li > < p > Outliers (total count and unique count), using < code > < a href = 'https://www.rdocumentation.org/packages/grDevices/topics/boxplot.stats' > boxplot.stats< / a > < / code > < / p > < / li >
< / ul >
< p > For dates and times of any class, these additional values will be calculated with < code > na.rm = TRUE< / code > and shown into the header:< / p > < ul >
< li > < p > Oldest, using < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/Extremes' > min< / a > < / code > < / p > < / li >
< li > < p > Newest, using < code > < a href = 'https://www.rdocumentation.org/packages/base/topics/Extremes' > max< / a > < / code > , with difference between newest and oldest< / p > < / li >
< li > < p > Median, using < code > < a href = 'https://www.rdocumentation.org/packages/stats/topics/median' > median< / a > < / code > , with percentage since oldest< / p > < / li >
< / ul >
< p > In factors, all factor levels that are not existing in the input data will be dropped.< / p >
< p > The function < code > top_freq< / code > uses < code > < a href = 'http://dplyr.tidyverse.org/reference/top_n.html' > top_n< / a > < / code > internally and will include more than < code > n< / code > rows if there are ties.< / p >
< h2 class = "hasAnchor" id = "examples" > < a class = "anchor" href = "#examples" > < / a > Examples< / h2 >
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< pre class = "examples" > < div class = 'input' > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/library' > library< / a > < / span > (< span class = 'no' > dplyr< / span > )
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< span class = 'co' > # this all gives the same result:< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > freq< / span > (< span class = 'no' > septic_patients< / span > $< span class = 'no' > hospital_id< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |D | 762| 38.1%| 762| 38.1%|
#> |2 |B | 663| 33.2%| 1,425| 71.3%|
#> |3 |A | 321| 16.1%| 1,746| 87.3%|
#> |4 |C | 254| 12.7%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' > < span class = 'fu' > freq< / span > (< span class = 'no' > septic_patients< / span > [, < span class = 'st' > "hospital_id"< / span > ])< / div > < div class = 'output co' > #>
#>
#> **Frequency table**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |D | 762| 38.1%| 762| 38.1%|
#> |2 |B | 663| 33.2%| 1,425| 71.3%|
#> |3 |A | 321| 16.1%| 1,746| 87.3%|
#> |4 |C | 254| 12.7%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' > < span class = 'no' > septic_patients< / span > $< span class = 'no' > hospital_id< / span > < span class = 'kw' > %> %< / span > < span class = 'fu' > freq< / span > ()< / div > < div class = 'output co' > #>
#>
#> **Frequency table**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |D | 762| 38.1%| 762| 38.1%|
#> |2 |B | 663| 33.2%| 1,425| 71.3%|
#> |3 |A | 321| 16.1%| 1,746| 87.3%|
#> |4 |C | 254| 12.7%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' > < span class = 'no' > septic_patients< / span > [, < span class = 'st' > "hospital_id"< / span > ] < span class = 'kw' > %> %< / span > < span class = 'fu' > freq< / span > ()< / div > < div class = 'output co' > #>
#>
#> **Frequency table**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |D | 762| 38.1%| 762| 38.1%|
#> |2 |B | 663| 33.2%| 1,425| 71.3%|
#> |3 |A | 321| 16.1%| 1,746| 87.3%|
#> |4 |C | 254| 12.7%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' > < span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span > < span class = 'fu' > freq< / span > (< span class = 'st' > "hospital_id"< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table of `hospital_id`**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |D | 762| 38.1%| 762| 38.1%|
#> |2 |B | 663| 33.2%| 1,425| 71.3%|
#> |3 |A | 321| 16.1%| 1,746| 87.3%|
#> |4 |C | 254| 12.7%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' > < span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span > < span class = 'fu' > freq< / span > (< span class = 'no' > hospital_id< / span > ) < span class = 'co' > #< - easiest to remember (tidyverse)< / span > < / div > < div class = 'output co' > #>
#>
#> **Frequency table of `hospital_id`**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |D | 762| 38.1%| 762| 38.1%|
#> |2 |B | 663| 33.2%| 1,425| 71.3%|
#> |3 |A | 321| 16.1%| 1,746| 87.3%|
#> |4 |C | 254| 12.7%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' >
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< span class = 'co' > # you could also use `select` or `pull` to get your variables< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
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< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/filter.html' > filter< / a > < / span > (< span class = 'no' > hospital_id< / span > < span class = 'kw' > ==< / span > < span class = 'st' > "A"< / span > ) < span class = 'kw' > %> %< / span >
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/select.html' > select< / a > < / span > (< span class = 'no' > mo< / span > ) < span class = 'kw' > %> %< / span >
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< span class = 'fu' > freq< / span > ()< / div > < div class = 'output co' > #>
#>
#> **Frequency table**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:------------|-----:|-------:|----------:|------------:|
#> |1 |B_ESCHR_COL | 62| 19.3%| 62| 19.3%|
#> |2 |B_STPHY_EPI | 46| 14.3%| 108| 33.6%|
#> |3 |B_STPHY_CNS | 38| 11.8%| 146| 45.5%|
#> |4 |B_STPHY_AUR | 35| 10.9%| 181| 56.4%|
#> |5 |B_STPHY_HOM | 25| 7.8%| 206| 64.2%|
#> |6 |B_STRPTC_PNE | 12| 3.7%| 218| 67.9%|
#> |7 |B_PROTS_MIR | 11| 3.4%| 229| 71.3%|
#> |8 |B_ENTRC_FAE | 10| 3.1%| 239| 74.5%|
#> |9 |B_KLBSL_PNE | 8| 2.5%| 247| 76.9%|
#> |10 |B_STRPTC_PYO | 7| 2.2%| 254| 79.1%|
#> |11 |B_BCTRD_FRA | 5| 1.6%| 259| 80.7%|
#> |12 |B_KLBSL_OXY | 5| 1.6%| 264| 82.2%|
#> |13 |B_STRPTC | 5| 1.6%| 269| 83.8%|
#> |14 |B_ENTRC_IUM | 4| 1.2%| 273| 85.0%|
#> |15 |B_STRPTC_MIT | 4| 1.2%| 277| 86.3%|
#> |16 |B_CRYNB | 3| 0.9%| 280| 87.2%|
#> |17 |B_PDMNS_AER | 3| 0.9%| 283| 88.2%|
#> |18 |B_STPHY_CAP | 3| 0.9%| 286| 89.1%|
#> |19 |B_STRPTC_DYS | 3| 0.9%| 289| 90.0%|
#> |20 |F_CANDD_GLB | 3| 0.9%| 292| 91.0%|
#> |21 |B_ACNTB | 2| 0.6%| 294| 91.6%|
#> |22 |B_ENTRB_CLO | 2| 0.6%| 296| 92.2%|
#> |23 |B_HMPHL_INF | 2| 0.6%| 298| 92.8%|
#> |24 |B_MCRCCC | 2| 0.6%| 300| 93.5%|
#> |25 |B_PROTS_VUL | 2| 0.6%| 302| 94.1%|
#> |26 |B_SERRT_MAR | 2| 0.6%| 304| 94.7%|
#> |27 |B_STPHY_COH | 2| 0.6%| 306| 95.3%|
#> |28 |B_STRPTC_BOV | 2| 0.6%| 308| 96.0%|
#> |29 |B_AMYCS_ODO | 1| 0.3%| 309| 96.3%|
#> |30 |B_ARCCC_URI | 1| 0.3%| 310| 96.6%|
#> |31 |B_CTRDM_PER | 1| 0.3%| 311| 96.9%|
#> |32 |B_CTRDM_SEP | 1| 0.3%| 312| 97.2%|
#> |33 |B_STPHY_SCH | 1| 0.3%| 313| 97.5%|
#> |34 |B_STRPTC_AGA | 1| 0.3%| 314| 97.8%|
#> |35 |B_STRPTC_EQU | 1| 0.3%| 315| 98.1%|
#> |36 |B_STRPTC_GRA | 1| 0.3%| 316| 98.4%|
#> |37 |B_STRPTC_GRB | 1| 0.3%| 317| 98.8%|
#> |38 |B_STRPTC_SAN | 1| 0.3%| 318| 99.1%|
#> |39 |B_VLLNL_PAR | 1| 0.3%| 319| 99.4%|
#> |40 |F_CANDD_ALB | 1| 0.3%| 320| 99.7%|
#> |41 |F_CANDD_TRO | 1| 0.3%| 321| 100.0%|
#>
#> < / div > < div class = 'input' >
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< span class = 'co' > # multiple selected variables will be pasted together< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'no' > left_join_microorganisms< / span > < span class = 'kw' > %> %< / span >
2018-12-31 01:48:53 +01:00
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/filter.html' > filter< / a > < / span > (< span class = 'no' > hospital_id< / span > < span class = 'kw' > ==< / span > < span class = 'st' > "A"< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > freq< / span > (< span class = 'no' > genus< / span > , < span class = 'no' > species< / span > )< / div > < div class = 'output co' > #> < span class = 'message' > Joining, by = "mo"< / span > < / div > < div class = 'output co' > #>
#>
#> **Frequency table of `genus` and `species`**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:---------------------------------|-----:|-------:|----------:|------------:|
#> |1 |Escherichia coli | 62| 19.3%| 62| 19.3%|
#> |2 |Staphylococcus epidermidis | 46| 14.3%| 108| 33.6%|
#> |3 |Staphylococcus coagulase negative | 38| 11.8%| 146| 45.5%|
#> |4 |Staphylococcus aureus | 35| 10.9%| 181| 56.4%|
#> |5 |Staphylococcus hominis | 25| 7.8%| 206| 64.2%|
#> |6 |Streptococcus pneumoniae | 12| 3.7%| 218| 67.9%|
#> |7 |Proteus mirabilis | 11| 3.4%| 229| 71.3%|
#> |8 |Enterococcus faecalis | 10| 3.1%| 239| 74.5%|
#> |9 |Klebsiella pneumoniae | 8| 2.5%| 247| 76.9%|
#> |10 |Streptococcus pyogenes | 7| 2.2%| 254| 79.1%|
#> |11 |Bacteroides fragilis | 5| 1.6%| 259| 80.7%|
#> |12 |Klebsiella oxytoca | 5| 1.6%| 264| 82.2%|
#> |13 |Streptococcus species | 5| 1.6%| 269| 83.8%|
#> |14 |Enterococcus faecium | 4| 1.2%| 273| 85.0%|
#> |15 |Streptococcus mitis | 4| 1.2%| 277| 86.3%|
#> |16 |Candida glabrata | 3| 0.9%| 280| 87.2%|
#> |17 |Corynebacterium species | 3| 0.9%| 283| 88.2%|
#> |18 |Pseudomonas aeruginosa | 3| 0.9%| 286| 89.1%|
#> |19 |Staphylococcus capitis | 3| 0.9%| 289| 90.0%|
#> |20 |Streptococcus dysgalactiae | 3| 0.9%| 292| 91.0%|
#> |21 |Acinetobacter species | 2| 0.6%| 294| 91.6%|
#> |22 |Enterobacter cloacae | 2| 0.6%| 296| 92.2%|
#> |23 |Haemophilus influenzae | 2| 0.6%| 298| 92.8%|
#> |24 |Micrococcus species | 2| 0.6%| 300| 93.5%|
#> |25 |Proteus vulgaris | 2| 0.6%| 302| 94.1%|
#> |26 |Serratia marcescens | 2| 0.6%| 304| 94.7%|
#> |27 |Staphylococcus cohnii | 2| 0.6%| 306| 95.3%|
#> |28 |Streptococcus bovis | 2| 0.6%| 308| 96.0%|
#> |29 |Actinomyces odontolyticus | 1| 0.3%| 309| 96.3%|
#> |30 |Aerococcus urinae | 1| 0.3%| 310| 96.6%|
#> |31 |Candida albicans | 1| 0.3%| 311| 96.9%|
#> |32 |Candida tropicalis | 1| 0.3%| 312| 97.2%|
#> |33 |Clostridium perfringens | 1| 0.3%| 313| 97.5%|
#> |34 |Clostridium septicum | 1| 0.3%| 314| 97.8%|
#> |35 |Staphylococcus schleiferi | 1| 0.3%| 315| 98.1%|
#> |36 |Streptococcus agalactiae | 1| 0.3%| 316| 98.4%|
#> |37 |Streptococcus equi | 1| 0.3%| 317| 98.8%|
#> |38 |Streptococcus group A | 1| 0.3%| 318| 99.1%|
#> |39 |Streptococcus group B | 1| 0.3%| 319| 99.4%|
#> |40 |Streptococcus sanguinis | 1| 0.3%| 320| 99.7%|
#> |41 |Veillonella parvula | 1| 0.3%| 321| 100.0%|
#>
#> < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # group a variable and analyse another< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
2018-12-31 01:48:53 +01:00
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/group_by.html' > group_by< / a > < / span > (< span class = 'no' > hospital_id< / span > ) < span class = 'kw' > %> %< / span >
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< span class = 'fu' > freq< / span > (< span class = 'no' > gender< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table of `gender` (grouped by `hospital_id`)**
#>
#>
#> | |Group |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:-----|:----|-----:|-------:|----------:|------------:|
#> |1 |1 |F | 148| 7.4%| 148| 7.4%|
#> |2 | |M | 173| 8.7%| 321| 16.1%|
#> |3 |2 |F | 332| 16.6%| 332| 16.6%|
#> |4 | |M | 331| 16.6%| 663| 33.2%|
#> |5 |3 |F | 121| 6.1%| 121| 6.1%|
#> |6 | |M | 133| 6.7%| 254| 12.7%|
#> |7 |4 |F | 368| 18.4%| 368| 18.4%|
#> |8 | |M | 394| 19.7%| 762| 38.1%|
#>
#> < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # get top 10 bugs of hospital A as a vector< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
2018-12-31 01:48:53 +01:00
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/filter.html' > filter< / a > < / span > (< span class = 'no' > hospital_id< / span > < span class = 'kw' > ==< / span > < span class = 'st' > "A"< / span > ) < span class = 'kw' > %> %< / span >
2018-12-29 22:24:19 +01:00
< span class = 'fu' > freq< / span > (< span class = 'no' > mo< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > top_freq< / span > (< span class = 'fl' > 10< / span > )< / div > < div class = 'output co' > #> 62 46 38 35 25
#> "B_ESCHR_COL" "B_STPHY_EPI" "B_STPHY_CNS" "B_STPHY_AUR" "B_STPHY_HOM"
#> 12 11 10 8 7
#> "B_STRPTC_PNE" "B_PROTS_MIR" "B_ENTRC_FAE" "B_KLBSL_PNE" "B_STRPTC_PYO" < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # save frequency table to an object< / span >
< span class = 'no' > years< / span > < span class = 'kw' > < -< / span > < span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
2018-12-31 01:48:53 +01:00
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/mutate.html' > mutate< / a > < / span > (< span class = 'kw' > year< / span > < span class = 'kw' > =< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/format' > format< / a > < / span > (< span class = 'no' > date< / span > , < span class = 'st' > "%Y"< / span > )) < span class = 'kw' > %> %< / span >
2018-12-29 22:24:19 +01:00
< span class = 'fu' > freq< / span > (< span class = 'no' > year< / span > )
< span class = 'co' > # show only the top 5< / span >
2018-12-31 14:30:06 +01:00
< span class = 'no' > years< / span > < span class = 'kw' > %> %< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/print' > print< / a > < / span > (< span class = 'kw' > nmax< / span > < span class = 'kw' > =< / span > < span class = 'fl' > 5< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table of `year`**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:--|:----|-----:|-------:|----------:|------------:|
#> |1 |2017 | 168| 8.4%| 168| 8.4%|
#> |2 |2004 | 167| 8.4%| 335| 16.8%|
#> |3 |2016 | 143| 7.2%| 478| 23.9%|
#> |4 |2002 | 136| 6.8%| 614| 30.7%|
#> |5 |2003 | 135| 6.8%| 749| 37.5%|
#>
#> (omitted 11 entries, n = 1,251 [62.6%])
#>
#> < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # save to an object with formatted percentages< / span >
< span class = 'no' > years< / span > < span class = 'kw' > < -< / span > < span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/format' > format< / a > < / span > (< span class = 'no' > years< / span > )
< span class = 'co' > # print a histogram of numeric values< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > age< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/graphics/topics/hist' > hist< / a > < / span > ()< / div > < div class = 'img' > < img src = 'freq-1.png' alt = '' width = '700' height = '433' / > < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # or print all points to a regular plot< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > age< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/graphics/topics/plot' > plot< / a > < / span > ()< / div > < div class = 'img' > < img src = 'freq-2.png' alt = '' width = '700' height = '433' / > < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # transform to a data.frame or tibble< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > age< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/as.data.frame' > as.data.frame< / a > < / span > ()< / div > < div class = 'output co' > #> item count percent cum_count cum_percent
#> 1 83 102 0.0510 102 0.0510
#> 2 80 75 0.0375 177 0.0885
#> 3 75 72 0.0360 249 0.1245
#> 4 79 72 0.0360 321 0.1605
#> 5 78 70 0.0350 391 0.1955
#> 6 76 65 0.0325 456 0.2280
#> 7 82 62 0.0310 518 0.2590
#> 8 86 61 0.0305 579 0.2895
#> 9 81 58 0.0290 637 0.3185
#> 10 87 57 0.0285 694 0.3470
#> 11 74 54 0.0270 748 0.3740
#> 12 73 53 0.0265 801 0.4005
#> 13 77 52 0.0260 853 0.4265
#> 14 67 51 0.0255 904 0.4520
#> 15 88 51 0.0255 955 0.4775
#> 16 70 50 0.0250 1005 0.5025
#> 17 69 49 0.0245 1054 0.5270
#> 18 71 47 0.0235 1101 0.5505
#> 19 72 45 0.0225 1146 0.5730
#> 20 65 43 0.0215 1189 0.5945
#> 21 66 42 0.0210 1231 0.6155
#> 22 85 42 0.0210 1273 0.6365
#> 23 68 41 0.0205 1314 0.6570
#> 24 47 39 0.0195 1353 0.6765
#> 25 90 35 0.0175 1388 0.6940
#> 26 89 34 0.0170 1422 0.7110
#> 27 84 33 0.0165 1455 0.7275
#> 28 62 32 0.0160 1487 0.7435
#> 29 59 31 0.0155 1518 0.7590
#> 30 64 31 0.0155 1549 0.7745
#> 31 57 29 0.0145 1578 0.7890
#> 32 63 28 0.0140 1606 0.8030
#> 33 51 27 0.0135 1633 0.8165
#> 34 52 25 0.0125 1658 0.8290
#> 35 60 25 0.0125 1683 0.8415
#> 36 53 23 0.0115 1706 0.8530
#> 37 58 23 0.0115 1729 0.8645
#> 38 50 22 0.0110 1751 0.8755
#> 39 56 21 0.0105 1772 0.8860
#> 40 45 20 0.0100 1792 0.8960
#> 41 55 17 0.0085 1809 0.9045
#> 42 61 17 0.0085 1826 0.9130
#> 43 93 16 0.0080 1842 0.9210
#> 44 43 15 0.0075 1857 0.9285
#> 45 44 13 0.0065 1870 0.9350
#> 46 46 13 0.0065 1883 0.9415
#> 47 41 10 0.0050 1893 0.9465
#> 48 48 10 0.0050 1903 0.9515
#> 49 30 9 0.0045 1912 0.9560
#> 50 54 9 0.0045 1921 0.9605
#> 51 92 9 0.0045 1930 0.9650
#> 52 91 8 0.0040 1938 0.9690
#> 53 42 7 0.0035 1945 0.9725
#> 54 38 6 0.0030 1951 0.9755
#> 55 94 6 0.0030 1957 0.9785
#> 56 20 4 0.0020 1961 0.9805
#> 57 39 4 0.0020 1965 0.9825
#> 58 49 4 0.0020 1969 0.9845
#> 59 19 3 0.0015 1972 0.9860
#> 60 29 3 0.0015 1975 0.9875
#> 61 33 3 0.0015 1978 0.9890
#> 62 37 3 0.0015 1981 0.9905
#> 63 40 3 0.0015 1984 0.9920
#> 64 18 2 0.0010 1986 0.9930
#> 65 24 2 0.0010 1988 0.9940
#> 66 31 2 0.0010 1990 0.9950
#> 67 36 2 0.0010 1992 0.9960
#> 68 97 2 0.0010 1994 0.9970
#> 69 14 1 0.0005 1995 0.9975
#> 70 22 1 0.0005 1996 0.9980
#> 71 32 1 0.0005 1997 0.9985
#> 72 34 1 0.0005 1998 0.9990
#> 73 35 1 0.0005 1999 0.9995
#> 74 95 1 0.0005 2000 1.0000< / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # or transform (back) to a vector< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > age< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/vector' > as.vector< / a > < / span > ()< / div > < div class = 'output co' > #> [1] 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83
#> [25] 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83
#> [49] 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83
#> [73] 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83 83
#> [97] 83 83 83 83 83 83 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80
#> [121] 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80
#> [145] 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80 80
#> [169] 80 80 80 80 80 80 80 80 80 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75
#> [193] 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75
#> [217] 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75 75
#> [241] 75 75 75 75 75 75 75 75 75 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79
#> [265] 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79
#> [289] 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79 79
#> [313] 79 79 79 79 79 79 79 79 79 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78
#> [337] 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78
#> [361] 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78 78
#> [385] 78 78 78 78 78 78 78 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76
#> [409] 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76
#> [433] 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76 76
#> [457] 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82
#> [481] 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82 82
#> [505] 82 82 82 82 82 82 82 82 82 82 82 82 82 82 86 86 86 86 86 86 86 86 86 86
#> [529] 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86
#> [553] 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86 86
#> [577] 86 86 86 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81
#> [601] 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81 81
#> [625] 81 81 81 81 81 81 81 81 81 81 81 81 81 87 87 87 87 87 87 87 87 87 87 87
#> [649] 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87
#> [673] 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 87 74 74
#> [697] 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74
#> [721] 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74 74
#> [745] 74 74 74 74 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73
#> [769] 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73 73
#> [793] 73 73 73 73 73 73 73 73 73 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77
#> [817] 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77 77
#> [841] 77 77 77 77 77 77 77 77 77 77 77 77 77 67 67 67 67 67 67 67 67 67 67 67
#> [865] 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67
#> [889] 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 67 88 88 88 88 88 88 88 88
#> [913] 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88
#> [937] 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 88 70 70 70 70 70
#> [961] 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70
#> [985] 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 70 69 69 69
#> [1009] 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69
#> [1033] 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 69 71 71
#> [1057] 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71
#> [1081] 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 71 72 72 72
#> [1105] 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72
#> [1129] 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 72 65 65 65 65 65 65
#> [1153] 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65 65
#> [1177] 65 65 65 65 65 65 65 65 65 65 65 65 65 66 66 66 66 66 66 66 66 66 66 66
#> [1201] 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66 66
#> [1225] 66 66 66 66 66 66 66 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85
#> [1249] 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85 85
#> [1273] 85 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68
#> [1297] 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 68 47 47 47 47 47 47
#> [1321] 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47 47
#> [1345] 47 47 47 47 47 47 47 47 47 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90
#> [1369] 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90 90 89 89 89 89
#> [1393] 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89 89
#> [1417] 89 89 89 89 89 89 84 84 84 84 84 84 84 84 84 84 84 84 84 84 84 84 84 84
#> [1441] 84 84 84 84 84 84 84 84 84 84 84 84 84 84 84 62 62 62 62 62 62 62 62 62
#> [1465] 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 62 59
#> [1489] 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59 59
#> [1513] 59 59 59 59 59 59 64 64 64 64 64 64 64 64 64 64 64 64 64 64 64 64 64 64
#> [1537] 64 64 64 64 64 64 64 64 64 64 64 64 64 57 57 57 57 57 57 57 57 57 57 57
#> [1561] 57 57 57 57 57 57 57 57 57 57 57 57 57 57 57 57 57 57 63 63 63 63 63 63
#> [1585] 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 63 51 51
#> [1609] 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51 51
#> [1633] 51 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52 52
#> [1657] 52 52 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60 60
#> [1681] 60 60 60 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53 53
#> [1705] 53 53 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58 58
#> [1729] 58 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 50 56
#> [1753] 56 56 56 56 56 56 56 56 56 56 56 56 56 56 56 56 56 56 56 56 45 45 45 45
#> [1777] 45 45 45 45 45 45 45 45 45 45 45 45 45 45 45 45 55 55 55 55 55 55 55 55
#> [1801] 55 55 55 55 55 55 55 55 55 61 61 61 61 61 61 61 61 61 61 61 61 61 61 61
#> [1825] 61 61 93 93 93 93 93 93 93 93 93 93 93 93 93 93 93 93 43 43 43 43 43 43
#> [1849] 43 43 43 43 43 43 43 43 43 44 44 44 44 44 44 44 44 44 44 44 44 44 46 46
#> [1873] 46 46 46 46 46 46 46 46 46 46 46 41 41 41 41 41 41 41 41 41 41 48 48 48
#> [1897] 48 48 48 48 48 48 48 30 30 30 30 30 30 30 30 30 54 54 54 54 54 54 54 54
#> [1921] 54 92 92 92 92 92 92 92 92 92 91 91 91 91 91 91 91 91 42 42 42 42 42 42
#> [1945] 42 38 38 38 38 38 38 94 94 94 94 94 94 20 20 20 20 39 39 39 39 49 49 49
#> [1969] 49 19 19 19 29 29 29 33 33 33 37 37 37 40 40 40 18 18 24 24 31 31 36 36
#> [1993] 97 97 14 22 32 34 35 95< / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/identical' > identical< / a > < / span > (< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > age< / span > ) < span class = 'kw' > %> %< / span >
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/vector' > as.vector< / a > < / span > () < span class = 'kw' > %> %< / span >
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/sort' > sort< / a > < / span > (),
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/sort' > sort< / a > < / span > (< span class = 'no' > septic_patients< / span > $< span class = 'no' > age< / span > )) < span class = 'co' > # TRUE< / span > < / div > < div class = 'output co' > #> [1] TRUE< / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # it also supports `table` objects< / span >
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/table' > table< / a > < / span > (< span class = 'no' > septic_patients< / span > $< span class = 'no' > gender< / span > ,
< span class = 'no' > septic_patients< / span > $< span class = 'no' > age< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > freq< / span > (< span class = 'kw' > sep< / span > < span class = 'kw' > =< / span > < span class = 'st' > " **sep** "< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table of a `table` object**
#>
#>
#> | |Item | Count| Percent| Cum. Count| Cum. Percent|
#> |:---|:------------|-----:|-------:|----------:|------------:|
#> |1 |F **sep** 83 | 55| 2.8%| 55| 2.8%|
#> |2 |M **sep** 78 | 51| 2.6%| 106| 5.3%|
#> |3 |M **sep** 83 | 47| 2.4%| 153| 7.7%|
#> |4 |M **sep** 82 | 43| 2.2%| 196| 9.8%|
#> |5 |M **sep** 79 | 42| 2.1%| 238| 11.9%|
#> |6 |F **sep** 80 | 41| 2.1%| 279| 14.0%|
#> |7 |F **sep** 76 | 39| 2.0%| 318| 15.9%|
#> |8 |F **sep** 75 | 38| 1.9%| 356| 17.8%|
#> |9 |F **sep** 86 | 38| 1.9%| 394| 19.7%|
#> |10 |M **sep** 71 | 35| 1.8%| 429| 21.5%|
#> |11 |M **sep** 75 | 34| 1.7%| 463| 23.2%|
#> |12 |M **sep** 77 | 34| 1.7%| 497| 24.9%|
#> |13 |M **sep** 80 | 34| 1.7%| 531| 26.6%|
#> |14 |F **sep** 81 | 33| 1.7%| 564| 28.2%|
#> |15 |M **sep** 88 | 31| 1.6%| 595| 29.8%|
#> |16 |F **sep** 79 | 30| 1.5%| 625| 31.3%|
#> |17 |M **sep** 74 | 30| 1.5%| 655| 32.8%|
#> |18 |M **sep** 87 | 30| 1.5%| 685| 34.3%|
#> |19 |F **sep** 65 | 29| 1.5%| 714| 35.7%|
#> |20 |M **sep** 73 | 29| 1.5%| 743| 37.2%|
#> |21 |M **sep** 69 | 28| 1.4%| 771| 38.6%|
#> |22 |M **sep** 72 | 28| 1.4%| 799| 40.0%|
#> |23 |F **sep** 67 | 27| 1.4%| 826| 41.3%|
#> |24 |F **sep** 87 | 27| 1.4%| 853| 42.7%|
#> |25 |M **sep** 76 | 26| 1.3%| 879| 44.0%|
#> |26 |F **sep** 66 | 25| 1.3%| 904| 45.2%|
#> |27 |F **sep** 70 | 25| 1.3%| 929| 46.5%|
#> |28 |M **sep** 70 | 25| 1.3%| 954| 47.7%|
#> |29 |M **sep** 81 | 25| 1.3%| 979| 49.0%|
#> |30 |F **sep** 47 | 24| 1.2%| 1,003| 50.1%|
#> |31 |F **sep** 73 | 24| 1.2%| 1,027| 51.4%|
#> |32 |F **sep** 74 | 24| 1.2%| 1,051| 52.6%|
#> |33 |M **sep** 67 | 24| 1.2%| 1,075| 53.8%|
#> |34 |M **sep** 86 | 23| 1.2%| 1,098| 54.9%|
#> |35 |F **sep** 89 | 22| 1.1%| 1,120| 56.0%|
#> |36 |M **sep** 68 | 22| 1.1%| 1,142| 57.1%|
#> |37 |M **sep** 85 | 22| 1.1%| 1,164| 58.2%|
#> |38 |F **sep** 69 | 21| 1.1%| 1,185| 59.3%|
#> |39 |M **sep** 62 | 21| 1.1%| 1,206| 60.3%|
#> |40 |F **sep** 85 | 20| 1.0%| 1,226| 61.3%|
#> |41 |F **sep** 88 | 20| 1.0%| 1,246| 62.3%|
#> |42 |F **sep** 90 | 20| 1.0%| 1,266| 63.3%|
#> |43 |M **sep** 64 | 20| 1.0%| 1,286| 64.3%|
#> |44 |F **sep** 68 | 19| 1.0%| 1,305| 65.3%|
#> |45 |F **sep** 78 | 19| 1.0%| 1,324| 66.2%|
#> |46 |F **sep** 82 | 19| 1.0%| 1,343| 67.2%|
#> |47 |F **sep** 45 | 18| 0.9%| 1,361| 68.1%|
#> |48 |F **sep** 60 | 18| 0.9%| 1,379| 69.0%|
#> |49 |F **sep** 77 | 18| 0.9%| 1,397| 69.9%|
#> |50 |F **sep** 84 | 18| 0.9%| 1,415| 70.8%|
#> |51 |M **sep** 51 | 18| 0.9%| 1,433| 71.7%|
#> |52 |M **sep** 52 | 18| 0.9%| 1,451| 72.6%|
#> |53 |F **sep** 57 | 17| 0.9%| 1,468| 73.4%|
#> |54 |F **sep** 72 | 17| 0.9%| 1,485| 74.3%|
#> |55 |M **sep** 66 | 17| 0.9%| 1,502| 75.1%|
#> |56 |F **sep** 58 | 16| 0.8%| 1,518| 75.9%|
#> |57 |F **sep** 59 | 16| 0.8%| 1,534| 76.7%|
#> |58 |M **sep** 56 | 16| 0.8%| 1,550| 77.5%|
#> |59 |M **sep** 47 | 15| 0.8%| 1,565| 78.3%|
#> |60 |M **sep** 59 | 15| 0.8%| 1,580| 79.0%|
#> |61 |M **sep** 84 | 15| 0.8%| 1,595| 79.8%|
#> |62 |M **sep** 90 | 15| 0.8%| 1,610| 80.5%|
#> |63 |F **sep** 63 | 14| 0.7%| 1,624| 81.2%|
#> |64 |M **sep** 53 | 14| 0.7%| 1,638| 81.9%|
#> |65 |M **sep** 63 | 14| 0.7%| 1,652| 82.6%|
#> |66 |M **sep** 65 | 14| 0.7%| 1,666| 83.3%|
#> |67 |M **sep** 61 | 13| 0.7%| 1,679| 84.0%|
#> |68 |F **sep** 50 | 12| 0.6%| 1,691| 84.6%|
#> |69 |F **sep** 71 | 12| 0.6%| 1,703| 85.2%|
#> |70 |M **sep** 57 | 12| 0.6%| 1,715| 85.8%|
#> |71 |M **sep** 89 | 12| 0.6%| 1,727| 86.4%|
#> |72 |M **sep** 93 | 12| 0.6%| 1,739| 87.0%|
#> |73 |F **sep** 62 | 11| 0.6%| 1,750| 87.5%|
#> |74 |F **sep** 64 | 11| 0.6%| 1,761| 88.1%|
#> |75 |M **sep** 50 | 10| 0.5%| 1,771| 88.6%|
#> |76 |F **sep** 43 | 9| 0.5%| 1,780| 89.0%|
#> |77 |F **sep** 46 | 9| 0.5%| 1,789| 89.5%|
#> |78 |F **sep** 51 | 9| 0.5%| 1,798| 89.9%|
#> |79 |F **sep** 53 | 9| 0.5%| 1,807| 90.4%|
#> |80 |F **sep** 55 | 9| 0.5%| 1,816| 90.8%|
#> |81 |M **sep** 30 | 9| 0.5%| 1,825| 91.3%|
#> |82 |F **sep** 44 | 8| 0.4%| 1,833| 91.7%|
#> |83 |M **sep** 55 | 8| 0.4%| 1,841| 92.1%|
#> |84 |F **sep** 41 | 7| 0.4%| 1,848| 92.4%|
#> |85 |F **sep** 48 | 7| 0.4%| 1,855| 92.8%|
#> |86 |F **sep** 52 | 7| 0.4%| 1,862| 93.1%|
#> |87 |M **sep** 58 | 7| 0.4%| 1,869| 93.5%|
#> |88 |M **sep** 60 | 7| 0.4%| 1,876| 93.8%|
#> |89 |F **sep** 92 | 6| 0.3%| 1,882| 94.1%|
#> |90 |M **sep** 43 | 6| 0.3%| 1,888| 94.4%|
#> |91 |F **sep** 38 | 5| 0.3%| 1,893| 94.7%|
#> |92 |F **sep** 42 | 5| 0.3%| 1,898| 94.9%|
#> |93 |F **sep** 56 | 5| 0.3%| 1,903| 95.2%|
#> |94 |M **sep** 44 | 5| 0.3%| 1,908| 95.4%|
#> |95 |M **sep** 54 | 5| 0.3%| 1,913| 95.7%|
#> |96 |F **sep** 20 | 4| 0.2%| 1,917| 95.9%|
#> |97 |F **sep** 54 | 4| 0.2%| 1,921| 96.1%|
#> |98 |F **sep** 61 | 4| 0.2%| 1,925| 96.3%|
#> |99 |F **sep** 91 | 4| 0.2%| 1,929| 96.5%|
#> |100 |F **sep** 93 | 4| 0.2%| 1,933| 96.7%|
#> |101 |F **sep** 94 | 4| 0.2%| 1,937| 96.9%|
#> |102 |M **sep** 46 | 4| 0.2%| 1,941| 97.1%|
#> |103 |M **sep** 91 | 4| 0.2%| 1,945| 97.3%|
#> |104 |F **sep** 39 | 3| 0.2%| 1,948| 97.4%|
#> |105 |M **sep** 19 | 3| 0.2%| 1,951| 97.6%|
#> |106 |M **sep** 33 | 3| 0.2%| 1,954| 97.7%|
#> |107 |M **sep** 41 | 3| 0.2%| 1,957| 97.9%|
#> |108 |M **sep** 48 | 3| 0.2%| 1,960| 98.0%|
#> |109 |M **sep** 92 | 3| 0.2%| 1,963| 98.2%|
#> |110 |F **sep** 31 | 2| 0.1%| 1,965| 98.3%|
#> |111 |F **sep** 49 | 2| 0.1%| 1,967| 98.4%|
#> |112 |M **sep** 18 | 2| 0.1%| 1,969| 98.5%|
#> |113 |M **sep** 24 | 2| 0.1%| 1,971| 98.6%|
#> |114 |M **sep** 29 | 2| 0.1%| 1,973| 98.7%|
#> |115 |M **sep** 36 | 2| 0.1%| 1,975| 98.8%|
#> |116 |M **sep** 37 | 2| 0.1%| 1,977| 98.9%|
#> |117 |M **sep** 40 | 2| 0.1%| 1,979| 99.0%|
#> |118 |M **sep** 42 | 2| 0.1%| 1,981| 99.1%|
#> |119 |M **sep** 45 | 2| 0.1%| 1,983| 99.2%|
#> |120 |M **sep** 49 | 2| 0.1%| 1,985| 99.3%|
#> |121 |M **sep** 94 | 2| 0.1%| 1,987| 99.4%|
#> |122 |M **sep** 97 | 2| 0.1%| 1,989| 99.5%|
#> |123 |F **sep** 22 | 1| 0.1%| 1,990| 99.5%|
#> |124 |F **sep** 29 | 1| 0.1%| 1,991| 99.6%|
#> |125 |F **sep** 34 | 1| 0.1%| 1,992| 99.6%|
#> |126 |F **sep** 35 | 1| 0.1%| 1,993| 99.7%|
#> |127 |F **sep** 37 | 1| 0.1%| 1,994| 99.7%|
#> |128 |F **sep** 40 | 1| 0.1%| 1,995| 99.8%|
#> |129 |M **sep** 14 | 1| 0.1%| 1,996| 99.8%|
#> |130 |M **sep** 32 | 1| 0.1%| 1,997| 99.9%|
#> |131 |M **sep** 38 | 1| 0.1%| 1,998| 99.9%|
#> |132 |M **sep** 39 | 1| 0.1%| 1,999| 100.0%|
#> |133 |M **sep** 95 | 1| 0.1%| 2,000| 100.0%|
#>
#> < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'co' > # only get selected columns< / span >
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > hospital_id< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/select.html' > select< / a > < / span > (< span class = 'no' > item< / span > , < span class = 'no' > percent< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table of `hospital_id`**
#>
#>
#> | |Item | Percent|
#> |:--|:----|-------:|
#> |1 |D | 38.1%|
#> |2 |B | 33.2%|
#> |3 |A | 16.1%|
#> |4 |C | 12.7%|
#>
#> < / div > < div class = 'input' >
2018-12-29 22:24:19 +01:00
< span class = 'no' > septic_patients< / span > < span class = 'kw' > %> %< / span >
< span class = 'fu' > freq< / span > (< span class = 'no' > hospital_id< / span > ) < span class = 'kw' > %> %< / span >
2018-12-31 14:30:06 +01:00
< span class = 'fu' > < a href = 'http://dplyr.tidyverse.org/reference/select.html' > select< / a > < / span > (-< span class = 'no' > count< / span > , -< span class = 'no' > cum_count< / span > )< / div > < div class = 'output co' > #>
#>
#> **Frequency table of `hospital_id`**
#>
#>
#> | |Item | Percent| Cum. Percent|
#> |:--|:----|-------:|------------:|
#> |1 |D | 38.1%| 38.1%|
#> |2 |B | 33.2%| 71.3%|
#> |3 |A | 16.1%| 87.3%|
#> |4 |C | 12.7%| 100.0%|
#>
#> < / div > < div class = 'input' >
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< span class = 'co' > # check differences between frequency tables< / span >
< span class = 'fu' > < a href = 'https://www.rdocumentation.org/packages/base/topics/diff' > diff< / a > < / span > (< span class = 'fu' > freq< / span > (< span class = 'no' > septic_patients< / span > $< span class = 'no' > trim< / span > ),
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< span class = 'fu' > freq< / span > (< span class = 'no' > septic_patients< / span > $< span class = 'no' > trsu< / span > ))< / div > < div class = 'output co' > #> Differences between frequency tables
#>
#> |Item | Count #1| Count #2| Difference| Diff. percent|
#> |:----|--------:|--------:|----------:|-------------:|
#> |S | 918| 1392| +474| +51.6%|
#> |R | 571| 361| -210| -36.8%|
#> |I | 10| 6| -4| -40.0%|< / div > < / pre >
2018-12-29 22:24:19 +01:00
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