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Use More Dynamic Gene Loading

Open ilan-gold opened this issue 3 years ago • 0 comments

I made a few small fixes and also updated examples where possible to be a bit more efficient with the dynamic gene loading.

  • Add intermediate path creation because pandas does not by default
  • Make the combat data sparse csc which vitessce can load quickly
  • Upgrade anndata
  • Use dense visium X matrix chunked efficiently with filtered heatmap (instead of filtered dense matrix loaded all at once)
  • Use sparse matrices for kuppe as in combat
  • Same for marshall and meta-azimuth

ilan-gold avatar Dec 12 '22 16:12 ilan-gold