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v1.0.0 - stable version with complete docs
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@sreichl sreichl released this 21 Mar 13:09
· 8 commits to main since this release
v1.0.0
d0e4676

Features

  • Processing
    • (optional) Single-cell BAM file splitting into groups based on metadata.
    • Merging and indexing of BAM files by group.
    • Generation of bigWig files for merged BAM files.
    • Extraction and extension of gene coordinates from 12-column BED files.
    • Creation of a BED file for all genes and genomic regions for IGV-report.
  • Visualization
    • Generation of customized plots for each gene/genomic region including all groups.
    • Creation of an interactive self-contained IGV-report for merged BAM files.
    • Setup of a UCSC genome browser track hub for all bigWigs, with color coding.

Documentation

  • Usage Recommendations and advice for efficient workflow execution.
  • Runtime information for ATAC-seq, RNA-seq, and scRNA-seq samples.
  • Genome Browser Tracks: Instructions for using the UCSC Genome Browser Track Hub and IGV for visualization.
  • Resources: Recommendations for compatible MR.PARETO modules and UCSC Genome Browser annotation track database

Full Changelog: v0.1.0...v1.0.0

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