compendiumdb

compendiumdb is an R tool to download functional genomics data from Gene Expression Omnibus (GEO) public data.

Topic

Data submission, annotation and curation;Data acquisition;Genomics

Detail

  • Operation: Query and retrieval

  • Software interface: Library

  • Language: R, Perl

  • License: GNU General Public License >=v2

  • Cost: Free

  • Version name: 1.0.2/3

  • Credit: BioRange program of the Netherlands Bioinformatics Centre (NBIC) as part of the Netherlands Genomics Initiative (NGI).

  • Input: -

  • Output: -

  • Contact: Umesh K. Nandal u.k.nandal@amc.uva.nl, Perry D. Moerland p.d.moerland@amc.uva.nl

  • Collection: -

  • Maturity: Emerging

Publications

  • compendiumdb: an R package for retrieval and storage of functional genomics data.
  • Nandal UK, van Kampen AH, Moerland PD. compendiumdb: an R package for retrieval and storage of functional genomics data. Bioinformatics. 2016 Sep 15;32(18):2856-7. doi: 10.1093/bioinformatics/btw335. Epub 2016 Jun 9. PMID: 27323392.
  • https://doi.org/10.1093/bioinformatics/btw335
  • PMID: 27323392
  • PMC: -

Download and documentation

< Back to DB search