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scE2G_v1.2

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@mayasheth mayasheth released this 06 Aug 16:39
· 61 commits to main since this release
v1.2
7dedae4

Version of scE2G used for revisions of Sheth, Qiu, et al. 2024

Major changes from v1.0:

  • Map gene names from RNA matrix through Ensembl ID to provided gene and TSS reference files
  • Retrain models for ATAC-only and multiome inputs with power law contact estimation (scATAC_powerlaw_v3 and multiome_powerlaw_v3)
  • Add configuration options to provide RNA matrix with all cells (rather than exact set of cells for the cluster) and preprocessed fragment files
  • Improve reporting of prediction properties, gene expression metrics, and other quality control measures
  • Improve documentation of input file formats and pipeline outputs
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