dr. M.S. (Matthijs) Berends a5e8beff69 prepare for documentation

2026-05-03 11:50:05 +02:00

..

aa_amr-package.R

(v2.1.1.9260) fix antibiogram

2025-04-29 16:15:18 +02:00

aa_globals.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

aa_helper_functions.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

aa_helper_pm_functions.R

(v3.0.0.9007) allow any tidyselect language in as.sir()

2025-07-17 14:29:35 +02:00

aa_options.R

Add add_if_missing parameter to control NA handling in interpretive rules (#264)

2026-04-21 21:53:43 +02:00

ab_from_text.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

ab_property.R

(v3.0.1.9047) fix #272

2026-04-21 22:11:40 +02:00

ab.R

(v3.0.1.9044) fix old R version

2026-04-04 11:51:50 +02:00

age.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

amr_course.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

amr_selectors.R

(v3.0.1.9042) add EUCAST breakpoint table v16 to interpretive_rules()

2026-04-02 11:42:19 +02:00

antibiogram.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

atc_online.R

(v3.0.1.9037) improve cli messages

2026-03-22 20:44:37 +01:00

av_from_text.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

av_property.R

Add add_if_missing parameter to control NA handling in interpretive rules (#264)

2026-04-21 21:53:43 +02:00

av.R

(v3.0.1.9040) fix MIC plotting

2026-03-24 12:44:47 +01:00

availability.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

bug_drug_combinations.R

Migrate parallel computing in as.sir() from parallel:: to future/future.apply (#280)

2026-04-30 08:57:19 +01:00

count.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

custom_antimicrobials.R

(v3.0.1.9039) cli fixes

2026-03-23 10:38:28 +01:00

custom_interpretive_rules.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

custom_mdro_guideline.R

(v3.0.1.9037) improve cli messages

2026-03-22 20:44:37 +01:00

custom_microorganisms.R

(v3.0.1.9039) cli fixes

2026-03-23 10:38:28 +01:00

data.R

prepare for documentation

2026-05-03 11:50:05 +02:00

disk.R

(v3.0.1.9040) fix MIC plotting

2026-03-24 12:44:47 +01:00

export_biosample.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

first_isolate.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

g.test.R

AMR v3.0\!

2025-06-02 12:11:00 +02:00

get_episode.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

ggplot_pca.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

ggplot_sir.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

guess_ab_col.R

(v3.0.1.9041) add breakpoints 2026

2026-03-30 10:01:49 +02:00

interpretive_rules.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

italicise_taxonomy.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

join_microorganisms.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

key_antimicrobials.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

kurtosis.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

like.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

mdro.R

(v3.0.1.9048) fix #275

2026-04-22 08:16:44 +02:00

mean_amr_distance.R

(v3.0.1.9021) add guideline to resistance() and susceptibility()

2026-02-12 20:34:06 +01:00

mic.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

mo_matching_score.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

mo_property.R

prepare for documentation

2026-05-03 11:50:05 +02:00

mo_source.R

(v3.0.1.9039) cli fixes

2026-03-23 10:38:28 +01:00

mo.R

Add add_if_missing parameter to control NA handling in interpretive rules (#264)

2026-04-21 21:53:43 +02:00

pca.R

Add add_if_missing parameter to control NA handling in interpretive rules (#264)

2026-04-21 21:53:43 +02:00

plotting.R

Add add_if_missing parameter to control NA handling in interpretive rules (#264)

2026-04-21 21:53:43 +02:00

proportion.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

random.R

(v3.0.0.9004) random mic fix

2025-06-13 16:12:28 +02:00

resistance_predict.R

(v3.0.1.9039) cli fixes

2026-03-23 10:38:28 +01:00

sir_calc.R

(v3.0.1.9037) improve cli messages

2026-03-22 20:44:37 +01:00

sir_df.R

(v3.0.0.9008) fix ggplot_sir(), support lighter green for SDD

2025-07-17 17:05:41 +02:00

sir.R

Migrate parallel computing in as.sir() from parallel:: to future/future.apply (#280)

2026-04-30 08:57:19 +01:00

skewness.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

sysdata.rda

(v3.0.1.9057) website fix

2026-05-02 14:56:26 +02:00

tidymodels.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

top_n_microorganisms.R

Add add_if_missing parameter to control NA handling in interpretive rules (#264)

2026-04-21 21:53:43 +02:00

translate.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00

vctrs.R

(v3.0.0.9007) allow any tidyselect language in as.sir()

2025-07-17 14:29:35 +02:00

whocc.R

(v2.1.1.9236) documentation

2025-04-12 11:46:42 +02:00

zz_deprecated.R

Generalise interpretive rules for multi-guideline support (#268) (#283)

2026-05-01 18:38:51 +01:00

zzz.R

(v3.0.0.9036) Modernise messaging infrastructure to use cli markup (#265)

2026-03-20 17:01:34 +01:00