chromPlot

chromPlot allows users to visualize multiple tracks of genomic data, including QTLs, synteny tracts, gene numbers, genetic variants, continuous or categorical variables, and more, in R with the help of its many packages. It can take data from data.frame tables and the necessary information for drawing mouse and human chromosomes are included in the package. It can read Gap and cytoBandIdeo tables from the UCSC Genome Browser for other organisms.

Topic

Data visualisation;Genomics

Detail

  • Operation: Genome visualisation

  • Software interface: Command-line user interface;Library

  • Language: R

  • License: GNU General Public License, version >=2

  • Cost: Free

  • Version name: 1.26.0

  • Credit: FONDECYT Initiation Project

  • Input: -

  • Output: -

  • Contact: Karen Y. Orostica korostica09@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • chromPlot: visualization of genomic data in chromosomal context.
  • Oróstica KY and Verdugo RA. chromPlot: visualization of genomic data in chromosomal context. chromPlot: visualization of genomic data in chromosomal context. 2016; 32:2366-8. doi: 10.1093/bioinformatics/btw137
  • https://doi.org/10.1093/bioinformatics/btw137
  • PMID: 27153580
  • PMC: -

Download and documentation

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