There is a newer version of the record available.

Published October 9, 2024 | Version 2024-10-09
Software Open

AlexsLemonade/OpenScPCA-analysis: 2024-10-09

Authors/Creators

  • 1. @AlexsLemonade
  • 2. Childhood Cancer Data Lab, Alex's Lemonade Stand Foundation
  • 3. St. Anna Children's Cancer Research Institute (CCRI)
  • 4. Alex's Lemonade Stand Foundation
  • 5. UT Southwestern
  • 6. MD Anderson Cancer Center
  • 7. UCL

Description

What's Changed

  • Initiate ropenspca package by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/735
  • Merge main into ropenscpca by @jashapiro in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/753
  • Add function to perform graph-based clustering by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/749
  • Add function to extract PC matrix (1/2) by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/758
  • Add download option to sync script by @jashapiro in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/751
  • Update sync-results.py printing by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/763
  • Extract PC matrix within clustering function (2/2) by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/759
  • Start an analysis for Wilms tumor annotation (SCPCP000014) by @JingxuanChen7 in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/764
  • Add function to sweep clustering parameters by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/765
  • Wilms tumor 06- clustering exploration by @maud-p in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/750
  • Merge main into feature/ropenscpca by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/769
  • Update rOpenScPCA gha by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/770
  • initial commit by @danhtruong in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/766
  • Add silhouette and purity functions by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/777
  • Do not print messages about syncs completing when using --dryrun by @jaclyn-taroni in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/780
  • Add function for cluster stability by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/779
  • Celltype annotation for non-ETP T-ALL (SCPCP000003) by @UTSouthwesternDSSR in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/767
  • 04_annotation_Across_Samples_exploration by @maud-p in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/776
  • Initiation of new Glioblastoma analysis module by @georginaalbadri in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/783
  • Anchor transfer (with Seurat) for Wilms tumor annotation (SCPCP000014) by @JingxuanChen7 in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/784
  • Add PNGs to large file exclusion by @jaclyn-taroni in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/792
  • Merge rOpenScPCA into main by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/795
  • celltype/tumor annotation for non-ETP T-ALL (SCPCP000003) by @UTSouthwesternDSSR in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/789
  • Add remaining modules with PR triggers to the run all workflow by @sjspielman in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/798

New Contributors

  • @JingxuanChen7 made their first contribution in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/764
  • @danhtruong made their first contribution in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/766
  • @UTSouthwesternDSSR made their first contribution in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/767
  • @georginaalbadri made their first contribution in https://github.com/AlexsLemonade/OpenScPCA-analysis/pull/783

Full Changelog: https://github.com/AlexsLemonade/OpenScPCA-analysis/compare/2024-09-04...2024-10-09

Files

AlexsLemonade/OpenScPCA-analysis-2024-10-09.zip

Files (742.2 MB)

Name Size Download all
md5:42ab0bc7a494375193125a63ac9664b6
742.2 MB Preview Download

Additional details

Related works

Is supplement to
Software: https://github.com/AlexsLemonade/OpenScPCA-analysis/tree/2024-10-09 (URL)