Claude
befbccc304
Generalise interpretive rules for multi-guideline support ( #268 )
...
- Rename data-raw/eucast_rules.tsv → interpretive_rules.tsv; add rule.provider
column (value: "EUCAST") to distinguish future CLSI rows
- Rename EUCAST_RULES_DF → INTERPRETIVE_RULES_DF in _pre_commit_checks.R;
filter by rule.provider == guideline when applying rules in interpretive_rules()
- Rename custom_eucast_rules() → custom_interpretive_rules() with new S3 class
"custom_interpretive_rules"; old function becomes a deprecated wrapper in
zz_deprecated.R; backward-compat S3 dispatch shims added for old class
- Remove stop_if(guideline == "CLSI", ...) so clsi_rules() no longer errors
- Add .onLoad shim in zzz.R to create INTERPRETIVE_RULES_DF from EUCAST_RULES_DF
for transitional compatibility until sysdata.rda is regenerated
https://claude.ai/code/session_01D46BTsfJSPo3HnLWp3PRkP
2026-04-30 21:29:26 +00:00
26613d774b
(v3.0.1.9042) add EUCAST breakpoint table v16 to interpretive_rules()
2026-04-02 11:42:19 +02:00
2df2911cf4
(v3.0.1.9018) fixes #249
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updates AB groups
2026-01-16 10:57:03 +01:00
3ba1b8a10a
(v3.0.0.9022) postpone new features - we like a clearly focussed bugfix release first
2025-09-03 15:39:44 +02:00
dc5559a2c4
(v2.1.1.9270) Add support for Korean, fix ATCs
2025-05-04 14:24:43 +02:00
ea443f7483
(v2.1.1.9247) CLSI/EUCAST 2025!
2025-04-20 12:55:31 +02:00
ca00ed468e
(v2.1.1.9243) fix sir documentation
2025-04-18 16:32:45 +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
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
e134e01418
(v2.1.1.9198) support eucast expert rules 14 and 13.1
2025-03-14 10:10:35 +01:00
f7938289eb
(v2.1.1.9186) replace antibiotics with antimicrobials!
2025-03-07 20:43:26 +01:00
9d636983ac
(v2.1.1.9148) scale fix, antibiogram fix
2025-02-15 12:38:29 +01:00
2171f05951
(v2.1.1.9143) unit tests
2025-02-07 19:18:55 +01:00
8ba2e4ed94
(v2.1.1.9141) new AMR selectors, eucast overwrite arg
2025-02-07 18:01:22 +01:00
baea4323c7
(v2.1.1.9140) WISCA fix
2025-02-05 20:48:35 +01:00
1149360b27
(v2.1.1.9129) unit test fix
2025-01-27 16:17:03 +01:00
640888f408
(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
2024-07-16 14:53:17 +02:00
de17de1be9
(v2.1.1.9048) vctrs update for sir
2024-06-13 20:55:17 +02:00
0d8a91db49
rename pre-commit hook to pre-commit checks (no-check)
2024-04-23 10:55:48 +02:00
b303662ec6
fix veterinary for R<4
2024-02-24 19:26:35 +01:00
ca72a646d0
scientific notation for MICs
2023-10-20 15:45:00 +02:00
7cda9e575b
prepare for CRAN
2023-10-20 14:51:48 +02:00
a4e2e25e3f
reftbl in plots, speedup for as.sir() and mo_validate
2023-07-10 16:43:46 +02:00
acb534102b
new species groups, updated clinical breakpoints
2023-07-08 17:30:05 +02:00
Dr. Matthijs Berends
f065945d7b
Update clinical breakpoints and fix some as.mo() bugs ( #117 )
...
* Updates clinical breakpoints EUCAST/CLSI 2023, fixes #102 , fixes #112 , fixes #113 , fixes #114 , fixes #115
* docs
* implement ecoffs
* unit tests
2023-06-22 15:10:59 +02:00
9591688811
documentation update
2023-05-27 10:39:22 +02:00
c6135d2082
updated microorganism codes
2023-05-26 16:10:01 +02:00
2007c3eef3
bind_rows
2023-02-10 17:09:48 +01:00
03294c7901
fix for Salmonella group A, unit tests
2023-02-10 16:47:25 +01:00
1a0dc4bf46
revert back to pre-antibiogram
2023-02-09 13:07:39 +01:00
f7dd890b79
fixes
2023-02-06 12:38:52 +01:00
7b00b4f34a
unit tests
2023-01-24 14:52:15 +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
8da2467209
updated taxonomy
2022-12-12 00:14:56 +01:00
f6862a139d
expert rules 12.0
2022-11-14 15:20:39 +01:00
d40e0ef20b
completely updated antibiotics
2022-10-30 14:31:45 +01:00
d10651eb26
cleanup
2022-10-22 10:20:09 +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
3864ab2fb8
Feather and Parquet files
2022-08-26 22:25:15 +02:00
ccb09706e4
v1.8.1
2022-03-24 23:05:04 +01:00
25cef46c59
(v1.8.0) prerelease 1.8.0
2021-12-23 18:56:28 +01:00
76dee66852
(v1.7.1.9074) as.mo() improvement, ASCII replacements for unit tests
2021-12-14 22:39:23 +01:00
77ba4318ea
(v1.7.1.9064) eucast 3.3 for mdro(), major change to repeated calling
2021-12-11 13:41:31 +01:00
