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
38cebc1541
(v2.1.1.9279) fix documentation, add foreign S3 exports to functions
2025-05-16 16:55:29 +02:00
d31371613e
(v2.1.1.9237) clean-up
2025-04-13 09:59:40 +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
b972bbb96f
(v2.1.1.9230) deprecated resistance_predict(), data set folder name without space
2025-03-28 16:48:56 +01:00
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
dad25302f2
make rsi work in more cases, documentation update
2023-02-22 14:38:57 +01:00
bc434db835
bring back antibiogram(), without deps
2023-02-10 16:18:00 +01:00
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
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
a0ee86536a
unit tests
2023-01-05 14:43:18 +01:00
f619fb683b
support new mo codes
2022-12-27 15:16:15 +01:00
f6862a139d
expert rules 12.0
2022-11-14 15:20:39 +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
b84d647cac
(v1.8.1.9012) update prevalence of some genera
2022-06-03 13:28:55 +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
0ec81cc12e
(v1.7.1.9021) autoplot generics
2021-07-12 22:12:28 +02:00
6838f03bde
(v1.7.1.9020) autoplot generics
2021-07-12 20:24:49 +02:00
99be4c7e7e
(v1.7.1.9002) ab class selectors update
2021-06-14 22:04:04 +02:00
a33c8a51a2
v1.7.0
2021-05-26 10:59:54 +02:00
a13fd98e8b
(v1.6.0.9063) prepare new release
2021-05-24 09:00:11 +02:00
aeea00881e
(v1.6.0.9023) new unit test flow
2021-05-13 19:31:47 +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
2eca8c3f01
(v1.5.0.9014) only_rsi_columns, is.rsi.eligible improvement
2021-02-02 23:57:35 +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
81af41da3a
(v1.4.0.9041) updates based on review
2020-12-17 16:22:25 +01:00
01d9522434
(v1.4.0.9017) stringsAsFactors definitions
2020-11-11 16:49:27 +01:00
15c732703d
(v1.4.0.9015) bugfix
2020-11-10 16:35:56 +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
9667c2994f
(v1.3.0.9029) eucast rules fix, unique()
2020-09-25 14:44:50 +02:00
4e40e42011
(v1.3.0.9022) mo_matching_score(), poorman update, as.rsi() fix
2020-09-18 16:05:53 +02:00
