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AMR_intro.ai
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bring back `antibiogram()`, without deps
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2023-02-10 16:18:00 +01:00 |
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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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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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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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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.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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_language_update.R
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fix `reference_df` endless loop
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2023-06-26 13:52:02 +02:00 |
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_pre_commit_hook.R
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unit test
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2023-07-10 19:04:12 +02:00 |
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ab.md5
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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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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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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antibiotics.dta
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.feather
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.parquet
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.rds
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.sav
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.txt
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.xlsx
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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antibiotics.xpt
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prepare for CRAN
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2023-10-20 14:51:48 +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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antivirals.xpt
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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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fix coercing `NA` to custom codes, fixes #107
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2023-05-08 13:04:18 +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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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.dta
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.feather
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.parquet
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.rds
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.sav
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.txt
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.xlsx
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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clinical_breakpoints.xpt
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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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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dosage.xpt
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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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unit tests
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2022-12-20 22:18:50 +01:00 |
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extractATCs.R
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completely updated `antibiotics`
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2022-10-30 14:31:45 +01:00 |
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intrinsicR.md5
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.dta
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.feather
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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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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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.rds
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.sav
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.txt
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.xlsx
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Fixes for Salmonella
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2022-12-17 14:31:33 +01:00 |
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intrinsic_resistant.xpt
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add XPT files for SAS software
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2023-05-12 10:07:55 +02:00 |
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logo.svg
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(v1.7.1.9068) new logo, unit tests
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2021-12-12 11:07:02 +01:00 |
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loinc.R
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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microorganisms.codes.dta
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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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microorganisms.codes.feather
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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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microorganisms.codes.md5
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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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microorganisms.codes.parquet
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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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microorganisms.codes.rds
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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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microorganisms.codes.sav
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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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microorganisms.codes.txt
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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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microorganisms.codes.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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microorganisms.codes.xpt
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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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microorganisms.dta
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.feather
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.dta
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.feather
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.md5
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.parquet
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.rds
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.sav
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.txt
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.xlsx
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.groups.xpt
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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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microorganisms.md5
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.parquet
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.rds
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.sav
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.txt
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.xlsx
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +02:00 |
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microorganisms.xpt
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +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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breakpoints UTI interpretation fix
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2023-07-10 13:41:52 +02:00 |
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poorman_prepend.R
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fix `reference_df` endless loop
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2023-06-26 13:52:02 +02:00 |
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read_EUCAST.R
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fix `reference_df` endless loop
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2023-06-26 13:52:02 +02:00 |
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reproduction_of_antibiotics.R
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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reproduction_of_antivirals.R
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prepare for CRAN
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2023-10-20 14:51:48 +02:00 |
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reproduction_of_clinical_breakpoints.R
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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reproduction_of_dosage.R
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fix `reference_df` endless loop
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2023-06-26 13:52:02 +02:00 |
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reproduction_of_example_isolates_unclean.R
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fix `reference_df` endless loop
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2023-06-26 13:52:02 +02:00 |
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reproduction_of_intrinsic_resistant.R
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fix `reference_df` endless loop
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2023-06-26 13:52:02 +02:00 |
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reproduction_of_microorganisms.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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reproduction_of_microorganisms.groups.R
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Added C. freundii complex and Y. pseudotuberculosis complex
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2023-07-14 10:49:06 +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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fix `reference_df` endless loop
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2023-06-26 13:52:02 +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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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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taxonomy0.rds
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microorganisms update, added Salmonella groups
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2022-12-16 16:10:43 +01:00 |
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taxonomy1.rds
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microorganisms update, added Salmonella groups
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2022-12-16 16:10:43 +01:00 |
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taxonomy2.rds
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microorganisms update, added Salmonella groups
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2022-12-16 16:10:43 +01:00 |
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taxonomy3.rds
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microorganisms update, added Salmonella groups
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2022-12-16 16:10:43 +01:00 |
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taxonomy_gbif.rds
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updated taxonomy
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2022-12-12 00:14:56 +01:00 |
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taxonomy_lpsn.rds
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updated taxonomy
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2022-12-12 00:14:56 +01:00 |
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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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anaerobic codes
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2023-04-17 11:26:19 +02:00 |
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v_10.0_Breakpoint_Tables.xlsx
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(v0.9.0.9022) inheritance fix
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2020-02-10 14:18:15 +01:00 |
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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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v_12.0_Breakpoint_Tables.xlsx
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(v1.8.1.9007) website update
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2022-05-11 10:10:31 +02:00 |
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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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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 |
dr. M.S. (Matthijs) Berends
7cda9e575b
