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2012

International,  COM (talks) 25 Jul 2012   Integration of S-MART, a toolbox to aid RNA-seq data analysis in Galaxy

S-MART is an intuitive tool, which performs many tasks usually required for the analysis of mapped RNA-Seq reads. S-MART does not require any computer science background and thus can be used by the biologist community through our Galaxy instance, which is considered as an "official Galaxy instance" by the Penn State Galaxy team, called URGI Galaxy (https://urgi.versailles.inra.fr/galaxy2), in which we integrated our tools for biologist and bio-informatician users. S-MART work-flows may perform several entire analyses, from the mapped reads to the loci of interest, without any need for other ad hoc scripts. We are currently integrating these work-flows to our URGI Galaxy: (i) piRNAs (Piwi-interacting RNAs) clusters detection (ii) nucleotidic distribution of the 5' ends of the reads (iii) comparison of RNA-seq with tiling arrays using sliding windows (iv) differential expression when no reference annotation is given. We will present the S-MART Galaxy Tool Box with some of its workflows at the conference.

Luo.pdf 2.40 MB
Update: 20 Dec 2013
Creation date: 21 Jan 2013