HiCExplorer

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 • 3 shared operations

FAN-C is a Python framework for analysis, visualization, and exploration of Hi-C and related chromatin conformation capture data. Provides a unified API for importing, processing, and analyzing Hi-C c

1 shared topic • 2 shared operations

IGV (Integrative Genomics Viewer) — high-performance Java desktop application for interactive visualization and exploration of genomic data. Supports BAM/CRAM alignments, VCF variants, BED/GFF annotat

1 shared topic • 2 shared operations

MAGeCK-VISPR — comprehensive CRISPR screen analysis framework combining MAGeCK statistical testing (RRA and MLE algorithms) with VISPR interactive visualization. Supports sgRNA count generation from F

1 shared topic • 2 shared operations

stLearn — spatial transcriptomics analysis in Python integrating gene expression with tissue morphology. Provides SME (spatial morphological gene expression) normalization, spatial clustering, spatial

1 shared topic • 2 shared operations