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02ea704
correct CN helper to use correct NSCL_multi file
phoman14 Oct 22, 2025
aa159b4
CN Copy Global code from NIDAP
phoman14 Oct 22, 2025
c26427e
FQC copy from BRACA_Support 250812
phoman14 Oct 22, 2025
a9236c1
coppy from NIDAP seed for SCDblFinder
phoman14 Oct 22, 2025
45272f1
FilterQC test functions
phoman14 Oct 22, 2025
a536fc5
PRD copy from BRACA_Support 250812
phoman14 Oct 22, 2025
65441d4
Copy Global code from NIDAP
phoman14 Oct 22, 2025
8d64ce3
PRD test scripts
phoman14 Oct 22, 2025
3e13ce7
test update if file does not extest
phoman14 Oct 22, 2025
4306260
Copy Harmony from NIDAP
phoman14 Oct 22, 2025
f7b8fc9
ModScore different copy from NIDAP
phoman14 Oct 22, 2025
b348803
ColByMarkerTable different copy from NIDAP
phoman14 Oct 22, 2025
9535066
NameCluster different copy from NIDAP
phoman14 Oct 22, 2025
f5c8b7e
DotPltMeta different copy from NIDAP
phoman14 Oct 22, 2025
4a232f9
VlnPlt Different function names Nidap vs Pkg so added Nidp to bottom
phoman14 Oct 22, 2025
a86e5f6
FilterSObyMeta small different copy from NIDAP
phoman14 Oct 22, 2025
10d142b
FindMarkers copy from NIDAP
phoman14 Oct 22, 2025
e8fee36
DL copy from BRACA_Support 250812
phoman14 Oct 22, 2025
46b0019
Merge branch 'DEV' of https://github.com/NIDAP-Community/SCWorkflow i…
phoman14 Oct 22, 2025
cb968a1
DL coppy from NIDAP very different using NIDAP copy will not bring ov…
phoman14 Oct 22, 2025
3ede163
Changes to pass tests
phoman14 Oct 22, 2025
bc98027
MS modifications for UNIT tests
phoman14 Oct 23, 2025
545ee3a
Changes made to make various unit tests to pass
phoman14 Oct 23, 2025
4d061cf
Update test scripts for noGlobal Code functions
phoman14 Oct 23, 2025
580e930
manually Add Vignette info from GalaxyCLI
phoman14 Oct 23, 2025
db487d6
Overview Vignette make option to run chunks
phoman14 Oct 23, 2025
8b323e4
Running Overview and Anno Markdown
phoman14 Oct 23, 2025
7f8a315
create vignette from pkgdown::build_site()
phoman14 Oct 28, 2025
58ba917
cleanup .gitignore
phoman14 Nov 24, 2025
aae3593
clean up gitignore local
phoman14 Nov 24, 2025
90f2780
Merge branch 'DEV' of https://github.com/NIDAP-Community/SCWorkflow i…
phoman14 Nov 24, 2025
7710ebf
Complete Vignetts RMD for all sections
phoman14 Nov 24, 2025
6f7c18a
errors in Vignette output
phoman14 Nov 25, 2025
ee27247
Make uniform output list object,data,plots
phoman14 Nov 25, 2025
e017096
update vignetts for standard output"
phoman14 Nov 25, 2025
c99e5cd
add Contributing Rmd to Vignette
phoman14 Nov 25, 2025
096c836
NIDAP json files for all templates
phoman14 Nov 25, 2025
061898f
remove extra json files
phoman14 Dec 15, 2025
f56f5e6
add Rshape2:: to melt
phoman14 Dec 15, 2025
b5bc6c6
docs: create flow chart for new features and match with documentation
phoman14 Dec 16, 2025
4be953b
update unit tests, fix ROxygen format
bianjh-cloud Jan 12, 2026
e603aca
Merge pull request #74 from NIDAP-Community/featureJing
bianjh-cloud Jan 15, 2026
6148948
update unit tests rev2
bianjh-cloud Jan 20, 2026
400c944
update function to work with both Seurat v5 and below
bianjh-cloud Jan 20, 2026
af600c3
Merge pull request #75 from NIDAP-Community/featureJing
bianjh-cloud Jan 20, 2026
9feb708
ci: add gha workflows from MOSuite
kelly-sovacool Feb 17, 2026
d281695
ci: run on dev branches
kelly-sovacool Feb 17, 2026
e4d28ef
ci: force R version 4.1.3
kelly-sovacool Feb 17, 2026
55e2dfe
chore: delete pryr from deps
kelly-sovacool Feb 17, 2026
e6080c3
chore: add dev deps
kelly-sovacool Feb 17, 2026
f4add3d
ci(pkgdown): use custom installation
kelly-sovacool Feb 17, 2026
2f2e45b
chore: pin seurat & matrix
kelly-sovacool Feb 17, 2026
71e36e7
chore: Matrix version with period instead of hyphen
kelly-sovacool Feb 17, 2026
c9286fb
chore: fix pkg version format
kelly-sovacool Feb 17, 2026
62b22be
chore: remove duplicate suggests field
kelly-sovacool Feb 17, 2026
766bc55
chore: usethis::use_tidy_description()
kelly-sovacool Feb 17, 2026
cb47390
chore(docker): set R version 4.1.3
kelly-sovacool Feb 17, 2026
0f1cfc0
ci: use docker container for R deps
kelly-sovacool Feb 18, 2026
936a47e
ci: consolidate test-coverage into check workflow
kelly-sovacool Feb 18, 2026
9f0eb4e
ci: fix container image def
kelly-sovacool Feb 18, 2026
b3f61bc
ci: hard-code container image
kelly-sovacool Feb 18, 2026
098f36d
New fun compare cel pop (#80)
phoman14 Mar 18, 2026
ab956cb
Clean up Roxygen parametrs and descriptions (#84)
phoman14 Mar 26, 2026
51d92be
3d tsne modify test for standard output
phoman14 Mar 26, 2026
3f672ee
Merge branch 'DEV' of github.com:NIDAP-Community/SCWorkflow into DEV
phoman14 Mar 26, 2026
3ac6f8c
chore: Merge branch 'DEV' into gha-workflows
kelly-sovacool Apr 28, 2026
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7 changes: 7 additions & 0 deletions .Rbuildignore
Original file line number Diff line number Diff line change
@@ -1,2 +1,9 @@
^.*\.Rproj$
^\.Rproj\.user$
^\.github$
^docs$
^Dockerfile$
^Dockerfiles/.*$
^Conda_Recipe/.*$
^doc$
^Meta$
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