CNVkit

https://cnvkit.readthedocs.io/en/stable/plots.html

Methods

linear single view single scale single focus contiguous segregated no abstraction linear parallel arrangement linear serial arrangement no interconnection segment sparse type segment contiguous type point sparse type point contiguous type

Tool

Access Format: “programming library” Supported Files: bed Supported Files: vcf Supported Files: other License: Apache License 2.0

Paper

CNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing

Talevich, Eric, et al. CNVkit: genome-wide copy number detection and visualization from targeted DNA sequencing. PLoS computational biology 12.4 (2016): e1004873.

Cited by: 447

Abstract

Summary: The amount of gene and genome data obtained by next-generation sequencing technologies generates a need for comparative visualization tools. Complementing existing software for comparison and exploration of genomics data, genoPlotR automatically creates publication-grade linear maps of gene and genomes, in a highly automatic, flexible and reproducible way., , Availability: genoPlotR is a platform-independent R package, available with full source code under a GPL2 license at R-Forge: http://genoplotr.r-forge.r-project.org/