Claude
0cc154257a
Qualify all {.help} tags with AMR:: and convert backtick ?func references
...
- Add AMR:: namespace prefix and trailing () to all {.help} cli markup
so they render as clickable help links (e.g. {.help AMR::as.sir}())
- Convert `?funcname` backtick-quoted help references to {.help AMR::funcname}()
in aa_helper_functions.R, custom_eucast_rules.R, interpretive_rules.R,
key_antimicrobials.R, mo.R, plotting.R, resistance_predict.R, and sir.R
- Skipped `?proportion` in sir_calc.R as 'proportion' is not exported
https://claude.ai/code/session_01XHWLohiSTdZvCutwD7ag2b
2026-03-18 20:06:52 +00:00
ba4c159154
(v3.0.1.9019) Wildtype/Non-wildtype support, and start with interpretive_rules()
...
Fixes #246
Fixes #254
Fixes #255
Fixes #256
2026-02-08 23:15:40 +01:00
38cebc1541
(v2.1.1.9279) fix documentation, add foreign S3 exports to functions
2025-05-16 16:55:29 +02:00
139f79d372
(v2.1.1.9278) support AMR selectors in custom MDRO guideline
2025-05-16 11:20:19 +02:00
40d7a971c3
(v2.1.1.9236) documentation
2025-04-12 11:46:42 +02:00
36fd99e1f4
(v2.1.1.9235) New website!
2025-04-08 15:54:30 +01:00
1fdab84103
(v2.1.1.9233) chore: make all argument texts full sentences
2025-03-31 14:53:24 +02:00
63099cd81e
(v2.1.1.9232) is.mic() iteration, documentation cleanup
2025-03-31 10:51:31 +02:00
d77ad6bd6e
(v2.1.1.9227) unit test fixes
2025-03-27 15:36:27 +01:00
e6f88241b2
(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
f7938289eb
(v2.1.1.9186) replace antibiotics with antimicrobials!
2025-03-07 20:43:26 +01:00
07efc292bc
(v2.1.1.9163) cleanup
2025-02-27 14:04:29 +01:00
640888f408
(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
2024-07-16 14:53:17 +02:00
9bf7584d58
(v2.1.1.9049) new 2024 breakpoints, add AMO, set NI instead of N
2024-06-14 22:39:01 +02:00
60c6c21e45
fix SIR interpretation
2024-05-31 09:50:54 +02:00
08a27922a8
new SDD and N for as.sir()
2024-05-20 15:27:04 +02:00
acb534102b
new species groups, updated clinical breakpoints
2023-07-08 17:30:05 +02:00
9591688811
documentation update
2023-05-27 10:39:22 +02:00
19fd0ef121
sort sir history
2023-01-23 15:01:21 +01:00
Dr. Matthijs Berends
98e62c9af2
Replace RSI with SIR
2023-01-21 23:47:20 +01:00
593d740b84
documentation, file permissions
2023-01-19 12:54:53 +01:00
a0ee86536a
unit tests
2023-01-05 14:43:18 +01:00
f619fb683b
support new mo codes
2022-12-27 15:16:15 +01:00
7ca44fb756
cleanup and new intro logo
2022-11-13 13:44:25 +01:00
c2801ba7a1
new rsi_translation
2022-10-22 22:00:15 +02:00
85e2fbe4a3
remove warnings from unit tests
2022-10-19 11:47:57 +02:00
Dr. Matthijs Berends
cd2acc4a29
New mo algorithm, prepare for 2.0
2022-10-05 09:12:22 +02:00
4d050aef7c
styled, unit test fix
2022-08-28 10:31:50 +02:00
303d61b473
new tibble export
2022-08-27 20:49:37 +02:00
952d16de33
new, automated website
2022-08-21 16:37:20 +02:00
b84d647cac
(v1.8.1.9012) update prevalence of some genera
2022-06-03 13:28:55 +02:00
25cef46c59
(v1.8.0) prerelease 1.8.0
2021-12-23 18:56:28 +01:00
694cf5ba77
(v1.7.1.9054) mdro() update - fixes #49 , first_isolate() speedup
2021-11-28 23:01:26 +01:00
a2d249962f
(v1.7.1.9023) Removed filter_ functions, new set_ab_names(), ATC code update, ab selector update, fixes #46 and fixed #47
2021-08-16 21:54:34 +02:00
04ef5b28e7
(v1.6.0.9050) printing NA in custom_eucast_rules()
2021-05-20 10:10:40 +02:00
5679ccdaf9
(v1.6.0.9017) extra system codes
2021-05-04 12:47:33 +02:00
12a8d59869
(v1.6.0.9015) italicise_taxonomy
2021-05-03 10:47:32 +02:00
c6289c3fc3
(v1.6.0.9007) documentation custom eucast rules, progress bar as.mo
2021-04-20 10:46:17 +02:00
7a3139f7cc
(v1.6.0.9000) custom EUCAST rules
2021-04-07 08:37:42 +02:00
