CHESS

Bismark — bisulfite-seq alignment and methylation calling toolkit. Maps bisulfite-treated reads to a reference genome using Bowtie 2, HISAT2, or minimap2, performs cytosine methylation calls in CpG/CH

3 shared topics

Use when working with bsseeker2 — BSseeker2 — bisulfite sequencing aligner

3 shared topics

bwa-meth -- fast and accurate bisulfite-seq (WGBS/RRBS) aligner built on BWA-MEM. Performs in-silico C-to-T conversion of reads and reference, aligns with BWA-MEM or BWA-MEM2, and recovers original ba

3 shared topics

dmrseq is an R/Bioconductor package for detecting differentially methylated regions (DMRs) from whole-genome bisulfite sequencing (WGBS) data. It fits a generalized least squares model with a smooth c

3 shared topics

wgbs_tools — command-line toolkit for whole-genome bisulfite sequencing (WGBS) analysis. Converts, indexes, and queries methylation data in efficient PAT/BETA binary formats. Provides per-CpG and per-

3 shared topics