Claude
1dabd4df3d
Replace bare backticks with cli inline markup across all messaging calls
...
- {.arg} for argument names in stop_/warning_/message_ calls
- {.cls} after "of class" text in format_class() and elsewhere
- {.fun} for function names (replaces `fn()` pattern)
- {.pkg} for tidyverse package names (dplyr, ggplot2)
- {.code} for code literals (TRUE, FALSE, expressions)
- Rewrite print.ab: use cli named-vector with * bullets and code
highlighting when cli >= 3.0.0; keep plain-text fallback otherwise
- Fix typo in as.sir(): "of must be" -> "or must be"
- switch sir.R verbose notes from message() to message_()
https://claude.ai/code/session_01XHWLohiSTdZvCutwD7ag2b
2026-03-19 08:35:26 +00:00
d94bdd2c6a
(v3.0.0.9008) fix ggplot_sir(), support lighter green for SDD
2025-07-17 17:05:41 +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
640888f408
(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
2024-07-16 14:53:17 +02:00
bdbf5198a2
(v2.1.1.9050) vctrs fix for sir, small documentation fixes
2024-06-15 15:33:49 +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
1a0dc4bf46
revert back to pre-antibiogram
2023-02-09 13:07:39 +01:00
9e99e66f01
use dplyr where available, new antibiogram() for WISCA, fixed Salmonella Typhi/Paratyphi
2023-02-06 11:57:22 +01:00
Dr. Matthijs Berends
98e62c9af2
Replace RSI with SIR
2023-01-21 23:47:20 +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
2d90218305
documentation fix
2022-11-05 12:06:40 +01:00
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
3b2b2be5f8
(v1.8.0.9002) as.rsi() cleanup, more informative warnings
2022-03-02 15:38:55 +01:00
25cef46c59
(v1.8.0) prerelease 1.8.0
2021-12-23 18:56:28 +01:00
7965468ccd
(v1.7.1.9058) vars selection for set_ab_names()
2021-12-05 22:06:45 +01:00
a13fd98e8b
(v1.6.0.9063) prepare new release
2021-05-24 09:00:11 +02:00
06302d296a
(v1.6.0.9062) code consistency
2021-05-24 00:06:28 +02:00
6920c0be41
(v1.6.0.9047) filter_ab_class() fixes
2021-05-18 11:29:31 +02:00
29dbfa2f49
(v1.6.0.9021) join functions update
2021-05-12 18:15:03 +02:00
850c123de7
(v1.5.0.9032) All group generics for MICs
2021-03-07 13:52:39 +01:00
8fda473e49
(v1.5.0.9015) unit test fix, grouped first isolates
2021-02-04 16:48:16 +01:00
2eca8c3f01
(v1.5.0.9014) only_rsi_columns, is.rsi.eligible improvement
2021-02-02 23:57:35 +01:00
20d638c193
(v1.5.0.9013) updated tibble printing colours
2021-01-28 16:09:30 +01:00
286eaa9699
(v1.5.0.9010) MDRO vignette update, get_episode for < day
2021-01-24 14:48:56 +01:00
4eab095306
(v1.5.0.9006) major documentation update
2021-01-18 16:57:56 +01:00
526f8afb08
(v1.4.0.9052) replaced all sapply's with type-safe vapply's
2020-12-28 22:24:33 +01:00
8b52f9b1be
(v1.4.0.9047) unit tests
2020-12-27 00:30:28 +01:00
128ebcfd62
(v1.4.0.9043) documentation update
2020-12-22 00:51:17 +01:00
203bc20eb0
(v1.4.0.9039) more unit tests
2020-12-13 20:44:32 +01:00
15c732703d
(v1.4.0.9015) bugfix
2020-11-10 16:35:56 +01:00
5a607abb36
(v1.4.0.9011) message formatting
2020-10-27 15:56:51 +01:00
4e9ccb4435
(v1.4.0.9001) is_gram_positive(), is_gram_negative(), parameter hardening
2020-10-19 17:09:19 +02:00
28e77680c5
(v1.4.0) matching score update
2020-10-08 11:16:03 +02:00
4e0374af29
(v1.3.0.9035) mdro() for EUCAST 3.2, examples cleanup
2020-09-29 23:35:46 +02:00
4e40e42011
(v1.3.0.9022) mo_matching_score(), poorman update, as.rsi() fix
2020-09-18 16:05:53 +02:00
76fc8e1b14
(v1.2.0.9026) move to github
2020-07-08 14:48:06 +02:00
93a158aebd
(v1.2.0.9011) mo_domain(), improved error handling
2020-06-22 11:18:40 +02:00
7f3da74b17
(v1.1.0.9004) lose dependencies
2020-05-16 13:05:47 +02:00
219cff403f
(v1.0.1.9004) Support dplyr 1.0.0
2020-03-14 14:05:43 +01:00
77656a676c
(v1.0.1.9002) PCA unit tests
2020-03-08 11:18:59 +01:00
9fc858f208
(v1.0.1.9001) PCA unit tests
2020-03-08 09:12:11 +01:00
fa0d9c58d9
(v1.0.1.9000) first PCA implementation
2020-03-07 21:48:21 +01:00
