dr. M.S. (Matthijs) Berends 36fd99e1f4 (v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

..

_reproduction scripts

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

datasets

(v2.1.1.9228) repo cleaning

2025-03-28 11:17:49 +01:00

_generate_GPT_knowledge_input.sh

(v2.1.1.9207) fix PythonPackage

2025-03-15 16:19:03 +01:00

_generate_python_wrapper.sh

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

_language_update.R

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

_pre_commit_checks.R

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

ab.md5

(v2.1.1.9218) Fix unit tests

2025-03-19 16:05:24 +01:00

AMR intro.jpg

(v2.1.1.9112) unit test

2024-12-06 18:01:54 +01:00

AMR new logo.txt

new logo

2024-02-25 14:20:43 +01:00

AMR_intro.ai

update intro logo

2024-04-24 09:58:24 +02:00

AMR_vet.html

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AMR_vet.qmd

(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update

2024-07-16 14:53:17 +02:00

AMRforRGPT_python.pdf

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

AMRforRGPT_python.pptx

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

AMRforRGPT_python.svg

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

AMRforRGPT.pdf

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

AMRforRGPT.pptx

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

AMRforRGPT.svg

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

av.md5

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bacdive.csv

(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update

2024-07-16 14:53:17 +02:00

bartlett_et_al_2022_human_pathogens.xlsx

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clin_break.md5

(v2.1.1.9196) fix eucast, unit tests

2025-03-13 15:38:39 +01:00

create_survey_page.R

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dosage.md5

Update clinical breakpoints and fix some as.mo() bugs (#117)

2023-06-22 15:10:59 +02:00

Dosages_v_11.0_Breakpoint_Tables.xlsx

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Dosages_v_12.0_Breakpoint_Tables.pdf

expert rules 12.0

2022-11-14 15:20:39 +01:00

Dosages_v_12.0_Breakpoint_Tables.xlsx

expert rules 12.0

2022-11-14 15:20:39 +01:00

Dosages_v_13.0_Breakpoint_Tables.pdf

Update clinical breakpoints and fix some as.mo() bugs (#117)

2023-06-22 15:10:59 +02:00

Dosages_v_13.0_Breakpoint_Tables.xlsx

Update clinical breakpoints and fix some as.mo() bugs (#117)

2023-06-22 15:10:59 +02:00

eucast_rules.tsv

(v2.1.1.9228) repo cleaning

2025-03-28 11:17:49 +01:00

Expected_Resistant_Phenotypes_v1.2_20230113.pdf

(v2.1.1.9225) fix geom_hline()/_vline() in MIC plotting, add EUCAT 1.2 in full, add London contribs, fix mo codes, add Kleb pneu complex

2025-03-26 17:19:17 +01:00

extractATCs.R

(v2.1.1.9217) allow + in amr selectors

2025-03-18 16:35:22 +01:00

gpt_training_text_v2.1.1.9235.txt

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

Intrinsic_Resistance_and_Unusual_Phenotypes_Tables_v3.3_20211018.pdf

(v1.7.1.9054) mdro() update - fixes #49, first_isolate() speedup

2021-11-28 23:01:26 +01:00

intrinsic_resistant.md5

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intrinsicR.md5

(v2.1.1.9228) repo cleaning

2025-03-28 11:17:49 +01:00

logo.old.svg

new logo

2024-02-25 14:20:43 +01:00

logo.svg

(v2.1.1.9082) algorithm updates

2024-09-30 18:46:55 +02:00

Loinc.csv

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loinc.R

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

microorganisms.codes.md5

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

microorganisms.groups.md5

(v2.1.1.9225) fix geom_hline()/_vline() in MIC plotting, add EUCAT 1.2 in full, add London contribs, fix mo codes, add Kleb pneu complex

2025-03-26 17:19:17 +01:00

microorganisms.md5

(v2.1.1.9225) fix geom_hline()/_vline() in MIC plotting, add EUCAT 1.2 in full, add London contribs, fix mo codes, add Kleb pneu complex

2025-03-26 17:19:17 +01:00

mo.md5

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organisms.rds

(v2.1.1.9049) new 2024 breakpoints, add AMO, set NI instead of N

2024-06-14 22:39:01 +02:00

poorman_prepend.R

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

Preference animal species groups.xlsx

(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update

2024-07-16 14:53:17 +02:00

read_EUCAST.R

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

salmonellae.R

(v2.1.1.9235) New website!

2025-04-08 15:54:30 +01:00

salmonellae.rds

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salonella_fix.R

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SNOMED_PHVS_Microorganism_CDC_V12.txt

(v1.5.0.9041) SNOMED update

2021-03-11 21:42:30 +01:00

species groups.R

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Species groups.xlsx

new species groups, updated clinical breakpoints

2023-07-08 17:30:05 +02:00

taxonomy0.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy1.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy1b.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy1c.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy2.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy2b.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy2c.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy3.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy3b.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy_gbif.rds

(v2.1.1.9081) HUGE microorganisms update for fungi!

2024-09-29 22:17:56 +02:00

taxonomy_lpsn_missing.rds

(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update

2024-07-16 14:53:17 +02:00

taxonomy_lpsn.rds

(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update

2024-07-16 14:53:17 +02:00

taxonomy_mycobank.rds

(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update

2024-07-16 14:53:17 +02:00

toxoplasma.R

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translations.tsv

(v2.1.1.9147) scale fixes and WISCA update, fix conserved capped values

2025-02-14 14:16:46 +01:00

v_10.0_Breakpoint_Tables.xlsx

(v0.9.0.9022) inheritance fix

2020-02-10 14:18:15 +01:00

v_11.0_Breakpoint_Tables.xlsx

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v_12.0_Breakpoint_Tables.xlsx

(v1.8.1.9007) website update

2022-05-11 10:10:31 +02:00

v_13.0_Breakpoint_Tables.xlsx

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v_13.1_Breakpoint_Tables.xlsx

(v2.1.1.9198) support eucast expert rules 14 and 13.1

2025-03-14 10:10:35 +01:00

v_14.0_Breakpoint_Tables.xlsx

(v2.1.1.9198) support eucast expert rules 14 and 13.1

2025-03-14 10:10:35 +01:00

whonet_bugfixes.R

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wisca_params.xlsx

(v2.1.1.9193) new antimicrobials for screening

2025-03-12 15:09:28 +01:00

wisca.xlsx

(v2.1.1.9193) new antimicrobials for screening

2025-03-12 15:09:28 +01:00