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(v2.1.1.9126) implemented WISCA! Also added top_n_microorganisms() and fixed Python wrapper

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dr. M.S. (Matthijs) Berends
2025-01-26 23:01:17 +01:00
parent 92c4fc0f94
commit 66833b4f5a
46 changed files with 1786 additions and 1842 deletions
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10
man/as.mo.Rd
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@ -11,20 +11,14 @@
\alias{mo_cleaning_regex}
\title{Transform Arbitrary Input to Valid Microbial Taxonomy}
\usage{
as.mo(
x,
Becker = FALSE,
Lancefield = FALSE,
as.mo(x, Becker = FALSE, Lancefield = FALSE,
minimum_matching_score = NULL,
keep_synonyms = getOption("AMR_keep_synonyms", FALSE),
reference_df = get_mo_source(),
ignore_pattern = getOption("AMR_ignore_pattern", NULL),
cleaning_regex = getOption("AMR_cleaning_regex", mo_cleaning_regex()),
only_fungi = getOption("AMR_only_fungi", FALSE),
language = get_AMR_locale(),
info = interactive(),
...
)
language = get_AMR_locale(), info = interactive(), ...)
is.mo(x)