Welcome to the IHEC GitHub. Here you can find, among other things, important repositories for EpiATLAS:
- EpiATLAS ChIP-Seq Pipeline integrative_analysis_chip
- BWA Alignment, Filtering, MACS2 Peak calling, QC
- Main output: signal bigWigs and peak bed files
- EpiATLAS WGBS Pipeline gemBS
- GEM3 Alignment, BSCall Methylation calling;
- Main output: percent methylated cytosines bigwig and bed files
- EpiATLAS RNA-Seq Pipeline grape-nf
- STAR Alignment, RSEM transcript quantification
- Main output: gene and transcript abundances
- EpiATLAS Metadata Harmonization
