@ -38,7 +38,7 @@
< a class = "navbar-brand me-2" href = "../index.html" > AMR (for R)< / a >
< small class = "nav-text text-muted me-auto" data-bs-toggle = "tooltip" data-bs-placement = "bottom" title = "" > 2.0.0.9026 < / small >
< small class = "nav-text text-muted me-auto" data-bs-toggle = "tooltip" data-bs-placement = "bottom" title = "" > 2.0.0.9028 < / small >
< button class = "navbar-toggler" type = "button" data-bs-toggle = "collapse" data-bs-target = "#navbar" aria-controls = "navbar" aria-expanded = "false" aria-label = "Toggle navigation" >
@ -193,7 +193,7 @@
< main id = "main" class = "col-md-9" > < div class = "page-header" >
< img src = "../logo.svg" class = "logo" alt = "" > < h1 > Data sets for download / own use< / h1 >
< h4 data-toc-skip class = "date" > 26 June 2023< / h4 >
< h4 data-toc-skip class = "date" > 08 July 2023< / h4 >
< small class = "dont-index" > Source: < a href = "https://github.com/msberends/AMR/blob/HEAD/vignettes/datasets.Rmd" class = "external-link" > < code > vignettes/datasets.Rmd< / code > < / a > < / small >
< div class = "d-none name" > < code > datasets.Rmd< / code > < / div >
@ -214,7 +214,7 @@ of the data sets look like.</p>
< h2 id = "microorganisms-full-microbial-taxonomy" >
< code > microorganisms< / code > : Full Microbial Taxonomy< a class = "anchor" aria-label = "anchor" href = "#microorganisms-full-microbial-taxonomy" > < / a >
< / h2 >
< p > A data set with 52 151 rows and 23 columns, containing the following
< p > A data set with 52 169 rows and 23 columns, containing the following
column names:< br > < em > mo< / em > , < em > fullname< / em > , < em > status< / em > , < em > kingdom< / em > ,
< em > phylum< / em > , < em > class< / em > , < em > order< / em > , < em > family< / em > ,
< em > genus< / em > , < em > species< / em > , < em > subspecies< / em > , < em > rank< / em > ,
@ -224,7 +224,7 @@ column names:<br><em>mo</em>, <em>fullname</em>, <em>status</em>, <em>kingdom</e
< em > snomed< / em > .< / p >
< p > This data set is in R available as < code > microorganisms< / code > , after
you load the < code > AMR< / code > package.< / p >
< p > It was last updated on 11 Ma y 2023 19:56:27 UTC. Find more info about
< p > It was last updated on 8 Jul y 2023 15:30:05 UTC. Find more info about
the structure of this data set < a href = "https://msberends.github.io/AMR/reference/microorganisms.html" > here< / a > .< / p >
< p > < strong > Direct download links:< / strong > < / p >
< ul >
@ -250,7 +250,7 @@ data (SAS) file</a> (50.9 MB)<br>
transport (XPT) file< / a > (48.6 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.sav" class = "external-link" > IBM
SPSS Statistics data file< / a > (17.7 MB)< br >
SPSS Statistics data file< / a > (17.8 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.dta" class = "external-link" > Stata
DTA file< / a > (48.6 MB)< / li >
@ -305,11 +305,11 @@ Set Name ‘ ’
< / tr >
< tr class = "even" >
< td align = "center" > Bacteria< / td >
< td align = "center" > 36 485 < / td >
< td align = "center" > 36 499 < / td >
< / tr >
< tr class = "odd" >
< td align = "center" > Fungi< / td >
< td align = "center" > 7 901 < / td >
< td align = "center" > 7 905 < / td >
< / tr >
< tr class = "even" >
< td align = "center" > Protozoa< / td >
@ -913,43 +913,43 @@ inhibitors</td>
< code > clinical_breakpoints< / code > : Interpretation from MIC values
& disk diameters to SIR< a class = "anchor" aria-label = "anchor" href = "#clinical_breakpoints-interpretation-from-mic-values-disk-diameters-to-sir" > < / a >
< / h2 >
< p > A data set with 42 599 rows and 12 columns, containing the following
column names:< br > < em > guideline< / em > , < em > method< / em > , < em > site< / em > , < em > mo< / em > ,
< em > rank_index< / em > , < em > ab< / em > , < em > ref_tbl< / em > , < em > disk_dose< / em > ,
< em > breakpoint_S< / em > , < em > breakpoint_R< / em > , < em > ecoff< / em > , and
< p > A data set with 28 454 rows and 12 columns, containing the following
column names:< br > < em > guideline< / em > , < em > type< / em > , < em > method< / em > , < em > site< / em > ,
< em > mo< / em > , < em > rank_index< / em > , < em > ab< / em > , < em > ref_tbl< / em > ,
< em > disk_dose< / em > , < em > breakpoint_S< / em > , < em > breakpoint_R< / em > , and
< em > uti< / em > .< / p >
< p > This data set is in R available as < code > clinical_breakpoints< / code > ,
after you load the < code > AMR< / code > package.< / p >
< p > It was last updated on 22 June 2023 13:10:59 UTC. Find more info
about the structure of this data set < a href = "https://msberends.github.io/AMR/reference/clinical_breakpoints.html" > here< / a > .< / p >
< p > It was last updated on 8 July 2023 15:30:05 UTC. Find more info about
the structure of this data set < a href = "https://msberends.github.io/AMR/reference/clinical_breakpoints.html" > here< / a > .< / p >
< p > < strong > Direct download links:< / strong > < / p >
< ul >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.rds" class = "external-link" > original
R Data Structure (RDS) file< / a > (82 kB)< br >
R Data Structure (RDS) file< / a > (57 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.txt" class = "external-link" > tab-separated
text file< / a > (4.4 MB)< br >
text file< / a > (3.2 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.xlsx" class = "external-link" > Microsoft
Excel workbook< / a > (1.8 MB)< br >
Excel workbook< / a > (1.2 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.feather" class = "external-link" > Apache
Feather file< / a > (1.6 MB)< br >
Feather file< / a > (1.1 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.parquet" class = "external-link" > Apache
Parquet file< / a > (0. 2 M B)< br >
Parquet file< / a > (9 2 k B)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.sas" class = "external-link" > SAS
data (SAS) file< / a > (3.6 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.xpt" class = "external-link" > SAS
transport (XPT) file< / a > (10 .6 MB)< br >
transport (XPT) file< / a > (7 .6 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.sav" class = "external-link" > IBM
SPSS Statistics data file< / a > (5.8 MB)< br >
SPSS Statistics data file< / a > (4.4 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/clinical_breakpoints.dta" class = "external-link" > Stata
DTA file< / a > (10 .5 MB)< / li >
DTA file< / a > (7 .5 MB)< / li >
< / ul >
< div class = "section level3" >
< h3 id = "source-3" > Source< a class = "anchor" aria-label = "anchor" href = "#source-3" > < / a >
@ -961,25 +961,26 @@ diffusion diameters. Included guidelines are CLSI (2011-2023) and EUCAST
< div class = "section level3" >
< h3 id = "example-content-3" > Example content< a class = "anchor" aria-label = "anchor" href = "#example-content-3" > < / a >
< / h3 >
< table style = "width:100%;" = "table" >
< table class = "table" >
< colgroup >
< col width = "7%" >
< col width = "4%" >
< col width = "3%" >
< col width = "8%" >
< col width = "14%" >
< col width = "7%" >
< col width = "3%" >
< col width = "9%" >
< col width = "7%" >
< col width = "6%" >
< col width = "3%" >
< col width = "4%" >
< col width = "3%" >
< col width = "7%" >
< col width = "14%" >
< col width = "6%" >
< col width = "2%" >
< col width = "15%" >
< col width = "8%" >
< col width = "8%" >
< col width = "4 %" >
< col width = "4 %" >
< col width = "7 %" >
< col width = "7 %" >
< col width = "3%" >
< / colgroup >
< thead > < tr class = "header" >
< th align = "center" > guideline< / th >
< th align = "center" > type< / th >
< th align = "center" > method< / th >
< th align = "center" > site< / th >
< th align = "center" > mo< / th >
@ -991,104 +992,103 @@ diffusion diameters. Included guidelines are CLSI (2011-2023) and EUCAST
< th align = "center" > disk_dose< / th >
< th align = "center" > breakpoint_S< / th >
< th align = "center" > breakpoint_R< / th >
< th align = "center" > ecoff< / th >
< th align = "center" > uti< / th >
< / tr > < / thead >
< tbody >
< tr class = "odd" >
< td align = "center" > EUCAST 2023< / td >
< td align = "center" > MIC < / td >
< td align = "center" > human < / td >
< td align = "center" > DISK< / td >
< td align = "center" > < / td >
< td align = "center" > F _ASPRG_MGTS < / td >
< td align = "center" > Aspergillus fumigatu s< / td >
< td align = "center" > B _ACHRMB_DNTR < / td >
< td align = "center" > Achromobacter denitrifican s< / td >
< td align = "center" > 2< / td >
< td align = "center" > AMB < / td >
< td align = "center" > Amphotericin B < / td >
< td align = "center" > Aspergillu s< / td >
< td align = "center" > < / td >
< td align = "center" > 1 < / td >
< td align = "center" > 1 < / td >
< td align = "center" > < / td >
< td align = "center" > MEM < / td >
< td align = "center" > Meropenem < / td >
< td align = "center" > A. xylosoxidan s< / td >
< td align = "center" > 10ug < / td >
< td align = "center" > 26.000 < / td >
< td align = "center" > 20.000 < / td >
< td align = "center" > FALSE< / td >
< / tr >
< tr class = "even" >
< td align = "center" > EUCAST 2023< / td >
< td align = "center" > human< / td >
< td align = "center" > MIC< / td >
< td align = "center" > < / td >
< td align = "center" > F _ASPRG_NIG R< / td >
< td align = "center" > Aspergillus niger < / td >
< td align = "center" > B _ACHRMB_DNT R< / td >
< td align = "center" > Achromobacter denitrificans < / td >
< td align = "center" > 2< / td >
< td align = "center" > AMB < / td >
< td align = "center" > Amphotericin B < / td >
< td align = "center" > Aspergillu s< / td >
< td align = "center" > < / td >
< td align = "center" > 1< / td >
< td align = "center" > 1< / td >
< td align = "center" > MEM < / td >
< td align = "center" > Meropenem < / td >
< td align = "center" > A. xylosoxidan s< / td >
< td align = "center" > < / td >
< td align = "center" > 1.000< / td >
< td align = "center" > 4.000< / td >
< td align = "center" > FALSE< / td >
< / tr >
< tr class = "odd" >
< td align = "center" > EUCAST 2023< / td >
< td align = "center" > MIC < / td >
< td align = "center" > human < / td >
< td align = "center" > DISK< / td >
< td align = "center" > < / td >
< td align = "center" > F_CANDD_ALBC < / td >
< td align = "center" > Candida alb icans< / td >
< td align = "center" > B_ACHRMB_DNTR < / td >
< td align = "center" > Achromobacter denitrif icans< / td >
< td align = "center" > 2< / td >
< td align = "center" > AMB < / td >
< td align = "center" > Amphotericin B < / td >
< td align = "center" > Cand ida< / td >
< td align = "center" > < / td >
< td align = "center" > 1 < / td >
< td align = "center" > 1 < / td >
< td align = "center" > < / td >
< td align = "center" > SXT < / td >
< td align = "center" > Trimethoprim/sulfamethoxazole < / td >
< td align = "center" > A. xylosox idans < / td >
< td align = "center" > 1.25ug/23.75ug < / td >
< td align = "center" > 26.000 < / td >
< td align = "center" > 26.000 < / td >
< td align = "center" > FALSE< / td >
< / tr >
< tr class = "even" >
< td align = "center" > EUCAST 2023< / td >
< td align = "center" > human< / td >
< td align = "center" > MIC< / td >
< td align = "center" > < / td >
< td align = "center" > F_CANDD_DBLN < / td >
< td align = "center" > Candida dubliniensi s< / td >
< td align = "center" > B_ACHRMB_DNTR < / td >
< td align = "center" > Achromobacter denitrifican s< / td >
< td align = "center" > 2< / td >
< td align = "center" > AMB < / td >
< td align = "center" > Amphotericin B < / td >
< td align = "center" > Cand ida< / td >
< td align = "center" > < / td >
< td align = "center" > 1< / td >
< td align = "center" > 1< / td >
< td align = "center" > SXT < / td >
< td align = "center" > Trimethoprim/sulfamethoxazole < / td >
< td align = "center" > A. xylosox idans < / td >
< td align = "center" > < / td >
< td align = "center" > 0.125< / td >
< td align = "center" > 0.125< / td >
< td align = "center" > FALSE< / td >
< / tr >
< tr class = "odd" >
< td align = "center" > EUCAST 2023< / td >
< td align = "center" > MIC < / td >
< td align = "center" > human < / td >
< td align = "center" > DISK< / td >
< td align = "center" > < / td >
< td align = "center" > F_CANDD_GLB R< / td >
< td align = "center" > Candida glabrata < / td >
< td align = "center" > B_ACHRMB_DNT R< / td >
< td align = "center" > Achromobacter denitrificans < / td >
< td align = "center" > 2< / td >
< td align = "center" > AMB < / td >
< td align = "center" > Amphot eri cin B < / td >
< td align = "center" > Cand ida< / td >
< td align = "center" > < / td >
< td align = "center" > 1 < / td >
< td align = "center" > 1 < / td >
< td align = "center" > < / td >
< td align = "center" > TZP < / td >
< td align = "center" > Pip era cillin/tazobactam < / td >
< td align = "center" > A. xylosox idans < / td >
< td align = "center" > 30ug/6ug < / td >
< td align = "center" > 26.000 < / td >
< td align = "center" > 26.000 < / td >
< td align = "center" > FALSE< / td >
< / tr >
< tr class = "even" >
< td align = "center" > EUCAST 2023< / td >
< td align = "center" > human< / td >
< td align = "center" > MIC< / td >
< td align = "center" > < / td >
< td align = "center" > F_CANDD_KRUS < / td >
< td align = "center" > Candida krusei < / td >
< td align = "center" > B_ACHRMB_DNTR < / td >
< td align = "center" > Achromobacter denitrificans < / td >
< td align = "center" > 2< / td >
< td align = "center" > AMB < / td >
< td align = "center" > Amphot eri cin B < / td >
< td align = "center" > Cand ida< / td >
< td align = "center" > < / td >
< td align = "center" > 1< / td >
< td align = "center" > 1< / td >
< td align = "center" > TZP < / td >
< td align = "center" > Pip era cillin/tazobactam < / td >
< td align = "center" > A. xylosox idans < / td >
< td align = "center" > < / td >
< td align = "center" > 4.000< / td >
< td align = "center" > 4.000< / td >
< td align = "center" > FALSE< / td >
< / tr >
< / tbody >
@ -1431,10 +1431,9 @@ DTA file</a> (0.1 MB)</li>
< / h3 >
< p > EUCAST breakpoints used in this package are based on the dosages in
this data set.< / p >
< p > Currently included dosages in the data set are meant for: < a href = "https://www.eucast.org/clinical_breakpoints/" class = "external-link" > ‘
Breakpoint Tables’ < / a > (2021), < a href = "https://www.eucast.org/clinical_breakpoints/" class = "external-link" > ‘
Breakpoint Tables’ < / a > (2022), and < a href = "https://www.eucast.org/clinical_breakpoints/" class = "external-link" > ‘
Breakpoint Tables’ < / a > (2023).< / p >
< p > Currently included dosages in the data set are meant for: < a href = "" > < / a > (), < a href = " https://www.eucast.org/clinical_breakpoints/" class = "external-link" > ‘
Breakpoint Tables’ < / a > (2021), and < a href = "https://www.eucast.org/clinical_breakpoints/" class = "external-link" > ‘
Breakpoint Tables’ < / a > (2022).< / p >
< / div >
< div class = "section level3" >
< h3 id = "example-content-5" > Example content< a class = "anchor" aria-label = "anchor" href = "#example-content-5" > < / a >
@ -2059,6 +2058,189 @@ reality and can be used to practise AMR data analysis.</p>
< / tbody >
< / table >
< / div >
< / div >
< div class = "section level2" >
< h2 id = "microorganisms-groups-species-groups-and-microbiological-complexes" >
< code > microorganisms.groups< / code > : Species Groups and
Microbiological Complexes< a class = "anchor" aria-label = "anchor" href = "#microorganisms-groups-species-groups-and-microbiological-complexes" > < / a >
< / h2 >
< p > A data set with 444 rows and 4 columns, containing the following
column names:< br > < em > mo_group< / em > , < em > mo< / em > , < em > mo_group_name< / em > , and
< em > mo_name< / em > .< / p >
< p > This data set is in R available as
< code > microorganisms.groups< / code > , after you load the < code > AMR< / code >
package.< / p >
< p > It was last updated on 8 July 2023 15:30:05 UTC. Find more info about
the structure of this data set < a href = "https://msberends.github.io/AMR/reference/microorganisms.groups.html" > here< / a > .< / p >
< p > < strong > Direct download links:< / strong > < / p >
< ul >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.rds" class = "external-link" > original
R Data Structure (RDS) file< / a > (5 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.txt" class = "external-link" > tab-separated
text file< / a > (42 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.xlsx" class = "external-link" > Microsoft
Excel workbook< / a > (18 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.feather" class = "external-link" > Apache
Feather file< / a > (17 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.parquet" class = "external-link" > Apache
Parquet file< / a > (12 kB)< br >
< / li >
< li > < em > (unavailable as SAS data (SAS) file)< / em > < / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.xpt" class = "external-link" > SAS
transport (XPT) file< / a > (0 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.sav" class = "external-link" > IBM
SPSS Statistics data file< / a > (54 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.groups.dta" class = "external-link" > Stata
DTA file< / a > (68 kB)< / li >
< / ul >
< div class = "section level3" >
< h3 id = "source-8" > Source< a class = "anchor" aria-label = "anchor" href = "#source-8" > < / a >
< / h3 >
< p > This data set contains species groups and microbiological complexes,
which are used in the < code > clinical_breakpoints< / code > data set.< / p >
< / div >
< div class = "section level3" >
< h3 id = "example-content-8" > Example content< a class = "anchor" aria-label = "anchor" href = "#example-content-8" > < / a >
< / h3 >
< table class = "table" >
< colgroup >
< col width = "17%" >
< col width = "15%" >
< col width = "35%" >
< col width = "31%" >
< / colgroup >
< thead > < tr class = "header" >
< th align = "center" > mo_group< / th >
< th align = "center" > mo< / th >
< th align = "center" > mo_group_name< / th >
< th align = "center" > mo_name< / th >
< / tr > < / thead >
< tbody >
< tr class = "odd" >
< td align = "center" > B_ACNTB_BMNN-C< / td >
< td align = "center" > B_ACNTB_BMNN< / td >
< td align = "center" > Acinetobacter baumannii complex< / td >
< td align = "center" > Acinetobacter baumannii< / td >
< / tr >
< tr class = "even" >
< td align = "center" > B_ACNTB_BMNN-C< / td >
< td align = "center" > B_ACNTB_CLCC< / td >
< td align = "center" > Acinetobacter baumannii complex< / td >
< td align = "center" > Acinetobacter calcoaceticus< / td >
< / tr >
< tr class = "odd" >
< td align = "center" > B_ACNTB_BMNN-C< / td >
< td align = "center" > B_ACNTB_DJKS< / td >
< td align = "center" > Acinetobacter baumannii complex< / td >
< td align = "center" > Acinetobacter dijkshoorniae< / td >
< / tr >
< tr class = "even" >
< td align = "center" > B_ACNTB_BMNN-C< / td >
< td align = "center" > B_ACNTB_NSCM< / td >
< td align = "center" > Acinetobacter baumannii complex< / td >
< td align = "center" > Acinetobacter nosocomialis< / td >
< / tr >
< tr class = "odd" >
< td align = "center" > B_ACNTB_BMNN-C< / td >
< td align = "center" > B_ACNTB_PITT< / td >
< td align = "center" > Acinetobacter baumannii complex< / td >
< td align = "center" > Acinetobacter pittii< / td >
< / tr >
< tr class = "even" >
< td align = "center" > B_ACNTB_BMNN-C< / td >
< td align = "center" > B_ACNTB_SFRT< / td >
< td align = "center" > Acinetobacter baumannii complex< / td >
< td align = "center" > Acinetobacter seifertii< / td >
< / tr >
< / tbody >
< / table >
< / div >
< / div >
< div class = "section level2" >
< h2 id = "microorganisms-codes-common-laboratory-codes" >
< code > microorganisms.codes< / code > : Common Laboratory Codes< a class = "anchor" aria-label = "anchor" href = "#microorganisms-codes-common-laboratory-codes" > < / a >
< / h2 >
< p > A data set with 4 957 rows and 2 columns, containing the following
column names:< br > < em > code< / em > and < em > mo< / em > .< / p >
< p > This data set is in R available as < code > microorganisms.codes< / code > ,
after you load the < code > AMR< / code > package.< / p >
< p > It was last updated on 8 July 2023 15:30:05 UTC. Find more info about
the structure of this data set < a href = "https://msberends.github.io/AMR/reference/microorganisms.codes.html" > here< / a > .< / p >
< p > < strong > Direct download links:< / strong > < / p >
< ul >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.rds" class = "external-link" > original
R Data Structure (RDS) file< / a > (22 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.txt" class = "external-link" > tab-separated
text file< / a > (0.1 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.xlsx" class = "external-link" > Microsoft
Excel workbook< / a > (91 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.feather" class = "external-link" > Apache
Feather file< / a > (85 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.parquet" class = "external-link" > Apache
Parquet file< / a > (57 kB)< br >
< / li >
< li > < em > (unavailable as SAS data (SAS) file)< / em > < / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.xpt" class = "external-link" > SAS
transport (XPT) file< / a > (0 kB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.sav" class = "external-link" > IBM
SPSS Statistics data file< / a > (0.1 MB)< br >
< / li >
< li > Download as < a href = "https://github.com/msberends/AMR/raw/main/data-raw/../data-raw/microorganisms.codes.dta" class = "external-link" > Stata
DTA file< / a > (0.1 MB)< / li >
< / ul >
< div class = "section level3" >
< h3 id = "source-9" > Source< a class = "anchor" aria-label = "anchor" href = "#source-9" > < / a >
< / h3 >
< p > This data set contains commonly used codes for microorganisms, from
laboratory systems and < a href = "https://whonet.org" class = "external-link" > WHONET< / a > .< / p >
< / div >
< div class = "section level3" >
< h3 id = "example-content-9" > Example content< a class = "anchor" aria-label = "anchor" href = "#example-content-9" > < / a >
< / h3 >
< table class = "table" >
< thead > < tr class = "header" >
< th align = "center" > code< / th >
< th align = "center" > mo< / th >
< / tr > < / thead >
< tbody >
< tr class = "odd" >
< td align = "center" > 1011< / td >
< td align = "center" > B_GRAMP< / td >
< / tr >
< tr class = "even" >
< td align = "center" > 1012< / td >
< td align = "center" > B_GRAMP< / td >
< / tr >
< tr class = "odd" >
< td align = "center" > 1013< / td >
< td align = "center" > B_GRAMN< / td >
< / tr >
< tr class = "even" >
< td align = "center" > 1014< / td >
< td align = "center" > B_GRAMN< / td >
< / tr >
< tr class = "odd" >
< td align = "center" > 1015< / td >
< td align = "center" > F_YEAST< / td >
< / tr >
< tr class = "even" >
< td align = "center" > 103< / td >
< td align = "center" > B_ESCHR_COLI< / td >
< / tr >
< / tbody >
< / table >
< / div >
< / div >
< / main > < aside class = "col-md-3" > < nav id = "toc" > < h2 > On this page< / h2 >
< / nav > < / aside >
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