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documentation update

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dr. M.S. (Matthijs) Berends
2019-04-07 22:40:02 +02:00
parent e76114f394
commit 30b559827c
10 changed files with 15 additions and 16 deletions
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vignettes/benchmarks.Rmd
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@ -85,9 +85,10 @@ boxplot(microbenchmark(as.mo("Thermus islandicus"),
main = "Benchmarks per prevalence")
```
In reality, the `as.mo()` functions **learns from its own output to speed up determinations for next times**. In above figure, this effect was disabled to show the difference with the boxplot below - when you would use `as.mo()` yourself:
```{r, echo = FALSE}
```{r, echo = FALSE, eval = FALSE}
# In reality, the `as.mo()` functions **learns from its own output to speed up determinations for next times**. In above figure, this effect was disabled to show the difference with the boxplot below - when you would use `as.mo()` yourself:
clean_mo_history()
par(mar = c(5, 16, 4, 2))
boxplot(microbenchmark(
@ -101,11 +102,11 @@ boxplot(microbenchmark(
horizontal = TRUE, las = 1, unit = "s", log = FALSE,
xlab = "", ylab = "Time in seconds", ylim = c(0, 0.5),
main = "Benchmarks per prevalence")
# The highest outliers are the first times. All next determinations were done in only thousands of seconds. For now, learning only works per session. If R is closed or terminated, the algorithms reset. This will probably be resolved in a next version.
```
The highest outliers are the first times. All next determinations were done in only thousands of seconds. For now, learning only works per session. If R is closed or terminated, the algorithms reset. This will probably be resolved in a next version.
Still, uncommon microorganisms take a lot more time than common microorganisms, especially the first time. To relieve this pitfall and further improve performance, two important calculations take almost no time at all: **repetitive results** and **already precalculated results**.
Uncommon microorganisms take a lot more time than common microorganisms. To relieve this pitfall and further improve performance, two important calculations take almost no time at all: **repetitive results** and **already precalculated results**.
### Repetitive results