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feat(iatlas): import github.com/CRI-iAtlas/iatlas-app (ARCH-362) #2941

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feat(iatlas): import github.com/CRI-iAtlas/iatlas-app (ARCH-362) #2941

wants to merge 1,115 commits into from

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tschaffter
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Changelog

  • Create the project iatlas-app.

andrewelamb and others added 30 commits February 22, 2022 10:04
@andrewelamb
comment out the install and init file
89384e2
@andrewelamb
redo workflow to run on prs to testing
2be9b66
@andrewelamb
redo workflow to run on prs to testing
552e30d
@andrewelamb
redo workflow to run on prs to testing
3797366
@andrewelamb
redo workflow to run on prs to testing
f7e6502
@heimannch
change app colors to match new figure
f5e2207
@andrewelamb
update r and packages
e32478d
@andrewelamb
update r version in github workflow
2e96b1d
@andrewelamb
Merge pull request Sage-Bionetworks#200 from CRI-iAtlas/issue_196_upd…
a73fb04 
…ate_packages_R

update r and packages
@andrewelamb
handle merge
5901431
@andrewelamb
rename github token
7c85e96
@andrewelamb
fix r code in workflow
669d06b
@andrewelamb
fix r code in workflow
9adf941
@andrewelamb
fix r code in workflow
d5350f3
@andrewelamb
fix r code in workflow
558d202
@andrewelamb
update login info
e722b87
@andrewelamb
add print statements for troubleshooting
9c73568
@andrewelamb
add print statements for troubleshooting
8345b86
@andrewelamb
redid how branch name is used
522d84a
@andrewelamb
update readme with new deployment description
0a27bb7
@andrewelamb
add code to workflow to write config yaml
107951e
@andrewelamb
Merge pull request Sage-Bionetworks#203 from CRI-iAtlas/issue_193_dep…
2c3f964 
…loyment_2

Issue 193 deployment 2
@andrewelamb
Merge pull request Sage-Bionetworks#204 from CRI-iAtlas/testing
4f82b2a 
Testing
@heimannch
add links to Resources and About page
94965ae
@heimannch
add links to Resources and About page
cad47ca
@heimannch
update navbar to links
266311c 
Merge branch 'update_text' of https://github.com/CRI-iAtlas/iatlas-app into update_text

# Conflicts:
#	ui.R
@heimannch
update color in sidenav
765f66b
@heimannch
update About text, contact button color
b2d1327
@heimannch
Merge branch 'staging' into change_color_scheme
7fec48e
@andrewelamb
Merge pull request Sage-Bionetworks#205 from CRI-iAtlas/change_color_…
c31ccf7 
…scheme

Change color scheme to match new color palette
heimannch and others added 20 commits August 20, 2024 17:48
@heimannch
remove x label for sc dist plots
e129171
@heimannch
sc umap using flat file
be2d6da
@heimannch
add plot button in umap viewer, only one dataset plots
18f6646
@heimannch
update number of sc datasets
20f0a98
@heimannch
fix error in germline heritability selection
df09d3f
@heimannch
update GWAS selection
c162773
@heimannch
update lockfile
cd69380
@heimannch
Merge pull request Sage-Bionetworks#251 from CRI-iAtlas/sc_modules_qu…
30aac70 
…eries

New sc datsets, using API for data retrieval
@heimannch
add sc cohort selection page
5c6ae41
@heimannch
Merge branch 'staging' into sc_cohort_selection
db2e345
@heimannch
send sc cohort obj to sc modules
f7c9e1c
@heimannch
sc distribution working with cohort_obj
72859f3
@heimannch
text updates
34ecfe2
@heimannch
update lockfile
64b436b
@heimannch
remove UMAP module
b5aa4cd
@heimannch
update list of datasets
11460d3
@heimannch
add PORTER to dataset overview, update error messages in neoantigen m…
6fb1bdc 
…odule
@heimannch
update dataset overview references
695baf7
@vthorsson
Merge pull request Sage-Bionetworks#254 from CRI-iAtlas/sc_cohort_sel…
34e32ad 
…ection

Sc cohort selection
@tschaffter
feat(repo): merge staging from https://github.com/CRI-iAtlas/iatlas-app
05da95c
@tschaffter tschaffter self-assigned this Dec 10, 2024
@tschaffter
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I chose not to import the iAtlas Shiny app into the monorepo due to the excessive time required to install its dependencies. This is primarily because 1) the project has an exceptionally large number of dependencies, and 2) many R packages must be built and installed from source.

"Adding the Shiny app was a stretch goal to consolidate all components in one place. However, it is not essential, as Sage is only responsible for maintaining the iAtlas backend.

Cc: @andrewelamb

@tschaffter tschaffter closed this Feb 4, 2025
@tschaffter tschaffter deleted the iatlas/import-app branch February 4, 2025 23:59
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4 participants
@tschaffter @andrewelamb @heimannch @vthorsson