HOMER (Hypergeometric Optimization of Motif EnRichment)

ngs.plot — fast R-based visualization tool for next-generation sequencing data enrichment at functional genomic regions. Generates average profiles and heatmaps from BAM files over TSS, TES, gene bodi

3 shared topics • 1 shared operation

CytoTRACE -- computational method for predicting relative differentiation state of cells from single-cell RNA-seq data. Uses gene counts (number of detectably expressed genes per cell) as a robust pro

2 shared topics • 1 shared operation

DecontX — R/Bioconductor method in the celda package for estimating and removing ambient RNA contamination from droplet-based single-cell RNA-seq data. Uses a Bayesian Dirichlet mixture model over cel

2 shared topics • 1 shared operation

Use when working with pybedtools — pybedtools — Python interface to BEDTools

2 shared topics • 1 shared operation

RASQUAL (Robust Allele Specific QUantification and quality controL) — joint QTL mapping tool that integrates total read counts and allele-specific reads for cis-regulatory variant discovery. Detects i

2 shared topics • 1 shared operation