Claude e981d5227d eucast_rules(): add add_if_missing argument to control NA imputation (#259) ...

When `add_if_missing = FALSE`, rules are only applied to cells that already
contain an SIR value; `NA` cells are left untouched. This is useful with
`overwrite = TRUE` to update reported results without imputing values for
drugs that were not tested.

https://claude.ai/code/session_01Nucc8nXGLqNUjtuC9GrhTc

2026-04-05 17:42:29 +02:00

..

aa_amr-package.R

(v2.1.1.9260) fix antibiogram

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

aa_globals.R

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

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

aa_helper_functions.R

(v3.0.1.9044) fix old R version

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

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

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

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

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

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

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

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

(v3.0.1.9034) Add amr_course()

2026-03-11 16:07:31 +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

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

2026-03-20 17:01:34 +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

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

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

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

(v3.0.1.9039) cli fixes

2026-03-23 10:38:28 +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_eucast_rules.R

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

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

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

(v3.0.1.9007) fix #246

2026-01-06 23:08:50 +01:00

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

(v3.0.1.9039) cli fixes

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

g.test.R

AMR v3.0\!

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

get_episode.R

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

2026-03-20 17:01:34 +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

eucast_rules(): add add_if_missing argument to control NA imputation (#259)

2026-04-05 17:42:29 +02:00

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

(v3.0.1.9039) cli fixes

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

mean_amr_distance.R

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

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

mic.R

(v3.0.1.9041) add breakpoints 2026

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

mo_matching_score.R

(v2.1.1.9236) documentation

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

mo_property.R

(v3.0.1.9039) cli fixes

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

mo_source.R

(v3.0.1.9039) cli fixes

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

mo.R

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

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

pca.R

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

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

plotting.R

(v3.0.1.9040) fix MIC plotting

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

proportion.R

(v3.0.1.9037) improve cli messages

2026-03-22 20:44:37 +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

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

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

skewness.R

(v2.1.1.9236) documentation

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

sysdata.rda

(v3.0.1.9044) fix old R version

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

tidymodels.R

(v3.0.1.9044) fix old R version

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

top_n_microorganisms.R

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

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

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

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

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

zzz.R

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

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