pgltools

The article describes the development of pgltools, a software tool suite for working with paired-genomic-loci data resulting from genomic interaction studies using next-generation sequencing. The authors present the paired-genomic-loci (PGL) file format and the pgltools analysis tool suite, which includes a cross-platform python package available as both a UNIX package and a python module.

Topic

DNA packaging;Applied mathematics;Genomics

Detail

  • Operation: Sequence analysis

  • Software interface: Command-line user interface

  • Language: Python

  • License: BSD 3-Clause "New" or "Revised" License

  • Cost: Free

  • Version name: v3.0.1

  • Credit: California Institute for Regenerative Medicine, National Institutes of Health.

  • Input: -

  • Output: -

  • Contact: billgreenwald@uscd.edu

  • Collection: -

  • Maturity: Mature

Publications

  • Pgltools: a genomic arithmetic tool suite for manipulation of Hi-C peak and other chromatin interaction data.
  • Greenwald WW, et al. Pgltools: a genomic arithmetic tool suite for manipulation of Hi-C peak and other chromatin interaction data. Pgltools: a genomic arithmetic tool suite for manipulation of Hi-C peak and other chromatin interaction data. 2017; 18:207. doi: 10.1186/s12859-017-1621-0
  • https://doi.org/10.1186/s12859-017-1621-0
  • PMID: 28388874
  • PMC: PMC5384132

Download and documentation

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