Juicebox

gff3sort is a fast command-line tool for sorting GFF3 annotation files so that parent features always appear before their child features, and features on the same sequence are ordered by start coordin

1 shared topic • 2 shared operations

HiCExplorer — comprehensive toolkit for Hi-C chromosome conformation capture data analysis, quality control, normalization, and visualization. Provides hicBuildMatrix (contact matrix construction), hi

1 shared topic • 2 shared operations

MetaWRAP — flexible pipeline for genome-resolved metagenomic data analysis. Wraps read QC (trimming, host removal), metagenomic assembly (MEGAHIT, metaSPAdes), binning (MaxBin2, metaBAT2, CONCOCT), bi

1 shared topic • 2 shared operations

Signac — R toolkit for single-cell chromatin accessibility analysis built on Seurat. Processes scATAC-seq data from 10x Genomics and other platforms. Handles fragment files, performs TF-IDF normalizat

1 shared topic • 2 shared operations

WiggleTools — command-line toolkit for streaming arithmetic and set operations on genomic signal tracks stored in Wiggle, BigWig, BedGraph, and BAM/CRAM formats. Computes sums, means, products, log tr

1 shared topic • 2 shared operations