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2026-04-02 09:54:05 +00:00
parent d6c59896e9
commit d0fd6aa2cc
103 changed files with 293 additions and 265 deletions

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@@ -36,8 +36,8 @@ A [tibble](https://tibble.tidyverse.org/reference/tibble.html) with 78
name of the taxon. ***This is a unique identifier.***
- `status`
Status of the taxon, either "accepted", "not validly published",
"synonym", or "unknown"
Status of the taxon, either .val accepted, .val not validly published,
.val synonym, or .val unknown
- `kingdom`, `phylum`, `class`, `order`, `family`, `genus`, `species`,
`subspecies`
@@ -59,17 +59,17 @@ A [tibble](https://tibble.tidyverse.org/reference/tibble.html) with 78
comply with CRAN that only allows ASCII characters.
- `oxygen_tolerance`
Oxygen tolerance, either "aerobe", "anaerobe",
"anaerobe/microaerophile", "facultative anaerobe", "likely facultative
anaerobe", "microaerophile", or NA. These data were retrieved from
BacDive (see *Source*). Items that contain "likely" are missing from
BacDive and were extrapolated from other species within the same genus
to guess the oxygen tolerance. Currently 68.3% of all ~39 000 bacteria
in the data set contain an oxygen tolerance.
Oxygen tolerance, either .val aerobe, .val anaerobe, .val
anaerobe/microaerophile, .val facultative anaerobe, .val likely
facultative anaerobe, .val microaerophile, or NA. These data were
retrieved from BacDive (see *Source*). Items that contain "likely" are
missing from BacDive and were extrapolated from other species within
the same genus to guess the oxygen tolerance. Currently 68.3% of all
~39 000 bacteria in the data set contain an oxygen tolerance.
- `source`
Either "GBIF", "LPSN", "Manually added", "MycoBank", or "manually
added" (see *Source*)
Either .val GBIF, .val LPSN, .val Manually added, .val MycoBank, or
.val manually added (see *Source*)
- `lpsn`
Identifier ('Record number') of List of Prokaryotic names with