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RobiNA

RobiNA

RobiNA is a pipeline tool for RNA-seq differential expression analysis, covering all analysis RNA-seq steps. RobiNA can use data from Illumina/Solexa, Affymetrix, and generic tabular two-color or single-channel array data. The package includes quality control, filtering, analysis of differential gene expression, and visualization of results. RobiNA uses bowtie for mapping of reads, DESeq, and edgeR for differential gene expression analysis. The output is compatible with MapMan and PageMan.

Topic

RNA-Seq; Microarray experiment

Details

  • Operation: Differential gene expression analysis
  • Input: FASTQ, SAM, BAM, counts tables
  • Output: -
  • Software interface: Gaphical user interface
  • Language: R;Java
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU GPL v2
  • Cost: Free
  • Version name: 1.2.3
  • Maturity: Mature
  • Credit: The Max Planck Society, German Ministry of Education and Research (BMBF).
  • Contact: Marc Lohse lohse _at_ mpimp-golm.mpg.de
  • Collection: -

Publications

Lohse M, Bolger AM, Nagel A, Fernie AR, Lunn JE, Stitt M, Usadel B "RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics." Nucleic Acids Res. 2012 Jul;40(Web Server issue):W622-7. Epub 2012 Jun 8. https://doi.org/10.1093/nar/gks540
PMID: 22684630
PMCID: PMC3394330


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