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_generate_GPT_knowledge_input.sh
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(v2.1.1.9107) new pkg knowledge for AMR
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2024-11-21 12:02:58 +01:00 |
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_generate_python_wrapper.sh
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(v2.1.1.9118) move ggplot2 plotting functions to general 'plotting' man page
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2024-12-14 19:41:15 +01:00 |
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_language_update.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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_pre_commit_checks.R
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(v2.1.1.9111) add betalactams_with_inhibitor(), fixes #175
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2024-12-06 15:44:20 +01:00 |
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ab.md5
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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AMR intro.jpg
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(v2.1.1.9112) unit test
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2024-12-06 18:01:54 +01:00 |
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AMR new logo.txt
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new logo
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2024-02-25 14:20:43 +01:00 |
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AMR_intro.ai
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update intro logo
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2024-04-24 09:58:24 +02:00 |
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AMR_vet.html
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support veterinary MIC/disk translation
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2024-02-24 15:16:52 +01:00 |
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AMR_vet.qmd
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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AMRforRGPT_python.pdf
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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AMRforRGPT_python.pptx
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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AMRforRGPT.pdf
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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AMRforRGPT.pptx
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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AMRforRGPT.svg
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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antibiograms.html
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fix for antibiograms on R < 3.5
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2023-02-24 09:43:10 +01:00 |
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antibiograms.pdf
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fix for antibiograms on R < 3.5
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2023-02-24 09:43:10 +01:00 |
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antibiograms.Rmd
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fix for antibiograms on R < 3.5
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2023-02-24 09:43:10 +01:00 |
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antibiotics.dta
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antibiotics.feather
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antibiotics.parquet
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antibiotics.rds
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antibiotics.sav
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antibiotics.txt
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antibiotics.xlsx
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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antivirals.dta
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antivirals.feather
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antivirals.parquet
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antivirals.rds
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antivirals.sav
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antivirals.txt
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antivirals.xlsx
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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av.md5
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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bacdive.csv
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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bartlett_et_al_2022_human_pathogens.xlsx
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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clin_break.md5
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.dta
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.feather
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.parquet
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.sav
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.txt
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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clinical_breakpoints.xlsx
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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create_survey_page.R
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sort sir history
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2023-01-23 15:01:21 +01:00 |
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dosage.dta
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.feather
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.md5
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.parquet
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.rds
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.sav
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.txt
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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dosage.xlsx
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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Dosages_v_11.0_Breakpoint_Tables.xlsx
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(v.1.5.0.9000) implementation of EUCAST rules v11 (2021)
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2021-01-12 22:08:04 +01:00 |
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Dosages_v_12.0_Breakpoint_Tables.pdf
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expert rules 12.0
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2022-11-14 15:20:39 +01:00 |
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Dosages_v_12.0_Breakpoint_Tables.xlsx
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expert rules 12.0
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2022-11-14 15:20:39 +01:00 |
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Dosages_v_13.0_Breakpoint_Tables.pdf
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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Dosages_v_13.0_Breakpoint_Tables.xlsx
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Update clinical breakpoints and fix some as.mo() bugs (#117)
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2023-06-22 15:10:59 +02:00 |
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eucast_rules.tsv
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(v2.1.1.9111) add betalactams_with_inhibitor(), fixes #175
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2024-12-06 15:44:20 +01:00 |
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extractATCs.R
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new Norwegian link
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2024-03-03 23:24:57 +01:00 |
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gpt_training_text_v2.1.1.9122.txt
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(v2.1.1.9122) fix documentation
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2024-12-20 10:52:44 +01:00 |
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Intrinsic_Resistance_and_Unusual_Phenotypes_Tables_v3.3_20211018.pdf
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(v1.7.1.9054) mdro() update - fixes #49, first_isolate() speedup
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2021-11-28 23:01:26 +01:00 |
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intrinsic_resistant.dta
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsic_resistant.feather
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsic_resistant.md5
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(v1.7.1.9064) eucast 3.3 for mdro(), major change to repeated calling
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2021-12-11 13:41:31 +01:00 |
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intrinsic_resistant.parquet
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsic_resistant.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsic_resistant.sav
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsic_resistant.txt
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsic_resistant.xlsx
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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intrinsicR.md5
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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logo.old.svg
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new logo
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2024-02-25 14:20:43 +01:00 |
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logo.svg
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(v2.1.1.9082) algorithm updates
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2024-09-30 18:46:55 +02:00 |
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Loinc.csv
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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loinc.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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microorganisms.codes.dta
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.feather
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.md5
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.parquet
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.sav
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.txt
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.codes.xlsx
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.dta
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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microorganisms.feather
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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microorganisms.groups.dta
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.feather
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.md5
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.parquet
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.sav
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.txt
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.groups.xlsx
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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microorganisms.md5
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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microorganisms.parquet
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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microorganisms.rds
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(v2.1.1.9089) website update
|
2024-10-04 15:44:05 +02:00 |
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microorganisms.sav
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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microorganisms.txt
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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microorganisms.xlsx
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(v2.1.1.9089) website update
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2024-10-04 15:44:05 +02:00 |
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mo.md5
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language updates
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2022-08-19 12:33:14 +02:00 |
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organisms.rds
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(v2.1.1.9049) new 2024 breakpoints, add AMO, set NI instead of N
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2024-06-14 22:39:01 +02:00 |
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poorman_prepend.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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Preference animal species groups.xlsx
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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read_EUCAST.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_antibiotics.R
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(v2.1.1.9094) fix antibiotics
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2024-10-10 16:38:20 +02:00 |
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reproduction_of_antivirals.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_clinical_breakpoints.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_dosage.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_example_isolates_unclean.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_intrinsic_resistant.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_microorganisms.groups.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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reproduction_of_microorganisms.R
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(v2.1.1.9082) algorithm updates
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2024-09-30 18:46:55 +02:00 |
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reproduction_of_poorman.R
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fix for antibiograms on R < 3.5
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2023-02-24 09:43:10 +01:00 |
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salmonellae.R
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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salmonellae.rds
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use dplyr where available, new antibiogram() for WISCA, fixed Salmonella Typhi/Paratyphi
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2023-02-06 11:57:22 +01:00 |
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salonella_fix.R
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unit tests
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2023-02-12 17:10:48 +01:00 |
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SNOMED_PHVS_Microorganism_CDC_V12.txt
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(v1.5.0.9041) SNOMED update
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2021-03-11 21:42:30 +01:00 |
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species groups.R
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new species groups, updated clinical breakpoints
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2023-07-08 17:30:05 +02:00 |
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Species groups.xlsx
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new species groups, updated clinical breakpoints
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2023-07-08 17:30:05 +02:00 |
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taxonomy0.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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taxonomy1.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
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2024-09-29 22:17:56 +02:00 |
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taxonomy1b.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
|
2024-09-29 22:17:56 +02:00 |
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taxonomy1c.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
|
2024-09-29 22:17:56 +02:00 |
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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 |
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taxonomy2c.rds
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(v2.1.1.9081) HUGE microorganisms update for fungi!
|
2024-09-29 22:17:56 +02:00 |
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taxonomy3.rds
|
(v2.1.1.9081) HUGE microorganisms update for fungi!
|
2024-09-29 22:17:56 +02:00 |
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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 |
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taxonomy_lpsn_missing.rds
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
|
2024-07-16 14:53:17 +02:00 |
|
taxonomy_lpsn.rds
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
|
2024-07-16 14:53:17 +02:00 |
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taxonomy_mycobank.rds
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(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
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2024-07-16 14:53:17 +02:00 |
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toxoplasma.R
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styled, unit test fix
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2022-08-28 10:31:50 +02:00 |
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translations.tsv
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(v2.1.1.9082) algorithm updates
|
2024-09-30 18:46:55 +02:00 |
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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
|
(v.1.5.0.9000) implementation of EUCAST rules v11 (2021)
|
2021-01-12 22:08:04 +01:00 |
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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
|
Update clinical breakpoints and fix some as.mo() bugs (#117)
|
2023-06-22 15:10:59 +02:00 |
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whonet_bugfixes.R
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(v1.7.1.9050) fix for as.mo
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2021-10-05 14:00:35 +02:00 |
