template-repos.yml

- url: https://github.com/Bendemeurichy/FlowSOM_parallel
- url: https://github.com/Bendemeurichy/flowSOM
- url: https://github.com/Boehringer-Ingelheim/dso
- url: https://github.com/Boehringer-Ingelheim/dso-mgr
- url: https://github.com/BoevaLab/infercnvpy
- url: https://github.com/CSOgroup/cellcharter
- url: https://github.com/CSOgroup/torchgmm
- url: https://github.com/ChanghaoGong/STutils
- url: https://github.com/CompCy-lab/scHub
- url: https://github.com/ComputationalBiomedicineGroup/Rectangle
- url: https://github.com/FroeseLab/bulkpy
- url: https://github.com/Gabriellvl/FlowSOM
- url: https://github.com/NKI-CCB/sobolev_alignment
- url: https://github.com/Teichlab/multi-view-atlas
- url: https://github.com/YosefLab/PopV
- url: https://github.com/YosefLab/embedding-scvi
- url: https://github.com/YosefLab/popV
- url: https://github.com/YosefLab/pycea
- url: https://github.com/YosefLab/scib-metrics
- url: https://github.com/YosefLab/scvi-criticism
  skip: true
  reason: Repository archived as readonly
- url: https://github.com/YosefLab/scvi-hub-models
- url: https://github.com/YosefLab/scvi-tools-docker
  skip: true
  reason: Cruft fails for unclear reasons
- url: https://github.com/YosefLab/treedata
- url: https://github.com/YosefLab/visionpy
- url: https://github.com/Zethson/fknni
- url: https://github.com/adamgayoso/figmasvg
- url: https://github.com/aertslab/CREsted
- url: https://github.com/aertslab/EnhancerAI
- url: https://github.com/angelolab/Nimbus-Inference
- url: https://github.com/angelolab/ark-spatial
- url: https://github.com/angelolab/pici-vitessce
- url: https://github.com/angelolab/tonic-vitessce
- url: https://github.com/bartuschimschek/mmil-refactored
- url: https://github.com/blengerich/auto_ehr
- url: https://github.com/cameronraysmith/perturbvelo
- url: https://github.com/clinicalomx/napari-prism
- url: https://github.com/cobioda/scispy
- url: https://github.com/const-ae/pyLemur
- url: https://github.com/d-j-k/donorpy
- url: https://github.com/data-intuitive/dummy-anndata
- url: https://github.com/dertrotl/geneGATer
- url: https://github.com/edbiomedai/scmorph
- url: https://github.com/ergonyc/lblator
- url: https://github.com/eroell/mypackage-cruft-oct
- url: https://github.com/greenelab/single_translator_VAE
- url: https://github.com/grst/spatialdata-plot
- url: https://github.com/icbi-lab/atlas_protocol
- url: https://github.com/icbi-lab/infercnvpy
- url: https://github.com/ilia-kats/PolarbearPlus
- url: https://github.com/immunitastx/monkeybread
- url: https://github.com/imsb-uke/nichepca
- url: https://github.com/ivirshup/binsparse-python
- url: https://github.com/jkobject/hierarchical_classifier
- url: https://github.com/jkobject/simpler_flash
- url: https://github.com/jlause/scverse-tutorials
- url: https://github.com/karadavis-lab/anndata-utils
- url: https://github.com/karadavis-lab/nbl
- url: https://github.com/lhqing/scmallet
- url: https://github.com/lucas-diedrich/sccoral
- url: https://github.com/lueckenlab/patpy
- url: https://github.com/macwiatrak/scverse-hackathon-data-4-ai
- url: https://github.com/mengerj/mmcontext
- url: https://github.com/mostafavilabuw/drum
- url: https://github.com/nitzanlab/biolord
- url: https://github.com/saeyslab/FlowSOM_Python
- url: https://github.com/scverse/cookiecutter-scverse-instance
  skip: true
  reason: Instance repo gets updated by the bot via the template
- url: https://github.com/scverse/formulaic-contrasts
- url: https://github.com/scverse/genomic-features
- url: https://github.com/scverse/multi-condition-comparisions
- url: https://github.com/scverse/pytometry
- url: https://github.com/scverse/scirpy
- url: https://github.com/scverse/scverse-tutorials
- url: https://github.com/scverse/simple-scvi
- url: https://github.com/scverse/spatialdata-plot
- url: https://github.com/scverse/squidpy
- url: https://github.com/smgoggin10/ESCHR
- url: https://github.com/srivarra/anatomize
- url: https://github.com/srivarra/annsel
- url: https://github.com/tansey-lab/nf-rnaseq
- url: https://github.com/tddough98/airgradient
- url: https://github.com/theislab/ehrdata
- url: https://github.com/theislab/geome
- url: https://github.com/theislab/multigrate
- url: https://github.com/theislab/multimil
- url: https://github.com/theislab/spatialdata-db
- url: https://github.com/theislab/transcription_factor_activity
- url: https://github.com/theislab/troutpy
- url: https://github.com/timtreis/gefslim
- url: https://github.com/vitkl/cell2module
- url: https://github.com/zunderlab/eschr