v1.0.1 - stable version with complete docs and DOI
Documentation
- Add Zenodo DOI
v1.0.0 - stable version with complete docs
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