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00518ec
feat: add BestDose optimization functionality
Siel Feb 12, 2026
04f741b
fix: use devtools::load_all() in bestdose example script
Siel Feb 12, 2026
19b924c
fix: limits from model not applied properly
mnneely Feb 16, 2026
e0a7bd9
Merge remote-tracking branch 'origin/main' into Michael
mnneely Feb 17, 2026
9cf18bb
fix: malformed PM_post
mnneely Feb 17, 2026
3602e9b
fix: plotting post predictions with data; remade data objects
mnneely Feb 17, 2026
76da1a4
fix: inappropriate truncating of long color names in plot.PM_data
mnneely Feb 17, 2026
1f49bbe
wip: update summary.PM_sim
mnneely Feb 19, 2026
44b0d6a
fix: max_cycles are passed correctly, also error model
Siel Mar 4, 2026
377ab05
fix: missing path in PMcheck or misspelled arguments in PM_sim
mnneely Mar 4, 2026
9fc29dd
feat: new bestdose API
Siel Mar 6, 2026
f909cc4
chore: remove old functions
mnneely Mar 6, 2026
7c8e433
fix: using PMcore on gh
Siel Mar 6, 2026
817cfeb
chore: remove optimize-raw
mnneely Mar 6, 2026
e6cf5df
Merge remote-tracking branch 'origin/bestdose' into BD-Michael
mnneely Mar 6, 2026
c884649
chore: simplify function names
mnneely Mar 7, 2026
898200f
Merge remote-tracking branch 'origin/Michael' into BD-Michael
mnneely Mar 7, 2026
3f3910a
chore: update documentation after merge
mnneely Mar 7, 2026
8a44db7
wip: creating simulated past
mnneely Mar 7, 2026
0b62a5f
wip: documentation
mnneely Mar 7, 2026
dc79248
wip: compile with silence and only recompile if simulating with covar…
mnneely Mar 7, 2026
fca65d7
feat: add plots
mnneely Mar 7, 2026
c9b06fb
fix: remove unneeded example
mnneely Mar 7, 2026
bd07b05
wip: register S3 plot.bd method
mnneely Mar 7, 2026
47fd9b5
wip: update plot, add inline targets, sort standard data by id, time,…
mnneely Mar 9, 2026
f73ccc4
Redesign bestdose API and fix bugs
Siel Mar 9, 2026
3ac3e99
Merge BD-Michael: integrate inline future API and improved plotting
Siel Mar 9, 2026
c2e20c9
fix: fixed some errors in the model definition of the example, suppre…
Siel Mar 10, 2026
f2fc5df
fix: the bd_new example now has no time_offset
Siel Mar 10, 2026
d2c58f6
fix: plot is not handling properly time_offset = Null, there are stil…
Siel Mar 10, 2026
5558ac9
wip: sorting PM_data
mnneely Mar 10, 2026
962ea95
Merge branch 'BD-Michael' of https://github.com/LAPKB/Pmetrics into B…
mnneely Mar 10, 2026
055b19f
wip: bias_weight -> prior_weight; target -> future. Accept list, PM_d…
mnneely Mar 10, 2026
73879ee
wip: remove include/exclude
mnneely Mar 10, 2026
f9e7a00
feat: add default date format to PMoptions based on user locale
mnneely Mar 10, 2026
07213a5
wip: updating report
mnneely Mar 13, 2026
89d0949
wip: update report try auc example; crash
mnneely Mar 13, 2026
1b295a2
wip: update example
mnneely Mar 13, 2026
70c9fb6
feat: function to download latest version of R
mnneely Mar 14, 2026
34725f2
wip: BD report updates
mnneely Mar 16, 2026
2ebf493
fix: update pkgdown
mnneely Apr 9, 2026
fa8486c
Merge remote-tracking branch 'origin/bestdose' into BD-Michael
mnneely Apr 9, 2026
139d3a0
wip: merge bestdose branch
mnneely Apr 9, 2026
4d46873
Merge remote-tracking branch 'origin/main' into BD-Michael
mnneely Apr 9, 2026
4c90c5c
wip: merge main into branch
mnneely Apr 9, 2026
9a062a1
wip: update version
mnneely Apr 9, 2026
5fed107
usng latest version of PMcore, it works but I neet to validate it a b…
Siel Apr 9, 2026
102c2db
Merge branch 'BD-Michael' into main
Siel Apr 15, 2026
d7b1624
fix: fix to match the expected structures in PMcore
Siel Apr 17, 2026
bab732d
Merge branch 'main' into BD-Michael
mhovd Apr 20, 2026
441fa83
wip: ignore inst/Examples
mnneely Apr 21, 2026
3e7a7f6
Merge remote-tracking branch 'origin/main' into BD-Michael
mhovd Apr 22, 2026
f0eb240
devtools::document()
mhovd Apr 22, 2026
7f41e9f
Fix faulty test
mhovd Apr 22, 2026
6b2e0f5
debug
Siel Apr 22, 2026
9bae413
Merge branch 'main' into BD-Michael
mhovd Apr 22, 2026
679e0de
bestdose fix?
Siel Apr 22, 2026
14bec1c
feat: Add simulate flag to PM_bestdose
R-garreau Apr 23, 2026
5bffc37
documentation : update bd.R
R-garreau Apr 24, 2026
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3 changes: 2 additions & 1 deletion .gitignore
Original file line number Diff line number Diff line change
Expand Up @@ -63,7 +63,7 @@ inst/Learn/_freeze/
data-raw/Runs/
tests/testthat/Runs/
Examples
!inst/Examples/
inst/Examples/
Experimental
other/
1
Expand All @@ -85,3 +85,4 @@ src/Makevars.win

# Old files
Archived

23 changes: 14 additions & 9 deletions Cargo.lock

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2 changes: 1 addition & 1 deletion DESCRIPTION
Original file line number Diff line number Diff line change
Expand Up @@ -77,7 +77,7 @@ Encoding: UTF-8
VignetteBuilder: knitr
LazyData: true
LazyDataCompression: xz
Config/rextendr/version: 0.4.2
Config/rextendr/version: 0.5.0
Config/testthat/edition: 3
Config/Needs/website:
r-lib/pkgdown,
Expand Down
5 changes: 5 additions & 0 deletions NAMESPACE
Original file line number Diff line number Diff line change
Expand Up @@ -17,6 +17,7 @@ S3method(plot,PM_pta)
S3method(plot,PM_sim)
S3method(plot,PM_valid)
S3method(plot,PMvalid)
S3method(plot,bd)
S3method(print,PM_compare)
S3method(print,PMerr)
S3method(print,PMnpc)
Expand Down Expand Up @@ -98,6 +99,8 @@ export(add_smooth)
export(additive)
export(all_is_numeric)
export(apps)
export(bd)
export(bd_post)
export(check_updates)
export(clear_build)
export(cli_ask)
Expand Down Expand Up @@ -183,6 +186,7 @@ importFrom(dplyr,group_by)
importFrom(dplyr,group_map)
importFrom(dplyr,if_else)
importFrom(dplyr,inner_join)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,n)
importFrom(dplyr,nest_by)
Expand All @@ -196,6 +200,7 @@ importFrom(dplyr,rowwise)
importFrom(dplyr,select)
importFrom(dplyr,slice)
importFrom(dplyr,slice_head)
importFrom(dplyr,slice_max)
importFrom(dplyr,slice_tail)
importFrom(dplyr,starts_with)
importFrom(dplyr,summarize)
Expand Down
1,247 changes: 1,247 additions & 0 deletions R/PM_bestdose.R

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