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Chromatin accessibility module

Project description

chame is a Python module to work with genomic ranges and chromatin accessibility. Part of scverse.

Documentation | Examples

Install chame

pip install git+https://github.com/gtca/chame

Functionality

I/O

10X Genomics ARC, SnapATAC, ArchR (arrow files).

Preprocessing and QC

TF-IDF / LSI. TSS enrichment, mono-nucleosome occupancy, etc.

Plotting

Joint gene + peak visualisation.


Other projects

  1. muon
  2. episcanpy
  3. SnapATAC2
  4. ArchR
  5. Signac

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