DMRcate

methylKit -- R/Bioconductor package for DNA methylation analysis from bisulfite sequencing data. Reads Bismark, BSmap, and generic CpG coverage files. Provides differential methylation analysis at bas

3 shared topics • 1 shared operation

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

2 shared topics • 1 shared operation

NgsRelate — pairwise relatedness estimation from NGS data using genotype likelihoods. Estimates kinship coefficients, R0/R1/KING-robust statistics, and inbreeding coefficients from VCF/BCF files or AN

2 shared topics • 1 shared operation

ScreenProcessing — Python pipeline for analyzing pooled genetic screens (CRISPRi/CRISPRa). Converts raw FASTQ sequencing files into library counts using fastqgz_to_counts.py, then generates sgRNA phen

2 shared topics • 1 shared operation

SOAPnuke — C++ quality control and preprocessing tool for high-throughput sequencing data. Filters and trims paired-end or single-end FASTQ reads by adapter content, low quality bases, N-base ratio, r

2 shared topics • 1 shared operation