A genome browser designed for complex structural variants and long reads.

Modin: Scale your Pandas workflows by changing a single line of code

Spatial Transcriptomics Capture Location Deconvolution

Tools to process and analyze deep sequencing data.

Integrative pathway enrichment analysis of multivariate omics data

Hierarchical HotNet is an algorithm for finding hierarchies of active subnetworks.

React Hooks — 👍

WGS Pipeline

Rare variant test software for next generation sequencing data

Generic human DNA variant annotation pipeline

Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec

Copy number variant detection from targeted DNA sequencing

Visualization and annotation of CNVs from population-scale whole-genome sequencing data

🌲 An easy-to-use and scalable toolkit for genomic alteration signature (a.k.a. mutational signature) analysis and visualization in R https://shixiangwang.github.io/sigminer/reference/index.html

Integrated copy number variation detection toolset

a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads

Plot CNV data with a genome viewer in R

🎉 CNVetti – robust, efficient, and versatile clinical CNV calling from HTS data

CN-Learn

📊 Circular and Rectangular Manhattan Plot

R package for extracting and visualizing mutational patterns in base substitution catalogues

Merging, Annotation, Validation, and Illustration of Structural variants

Runs a combination of tools to generate structural variant calls on whole-genome sequencing data

Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data

Tumor Heterogeneity Analysis (THetA) and THetA2 are algorithms that estimate the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data. This re…

Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data

Somatic copy number analysis using WGS paired end wholegenome sequencing

An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.