Tuesday, February 24, 2015

Fwd: rbamtools: an R interface to samtools enabling fast accumulative tabulation of splicing events over multiple RNA-seq samples

Fwd: please follow footer link

rbamtools: an R interface to samtools enabling fast accumulative tabulation of splicing events over multiple RNA-seq samples: "

Summary: The open source environment R isf the most widely used software to statistically explore biological data sets including sequence alignments. BAM is the de facto standard file format for sequence alignment. With rbamtools, we provide now a full spectrum of accessibility to BAM for R users such as reading, writing, extraction of subsets and plotting of alignment depth where the script syntax closely follows the SAM/BAM format. Additionally, rbamtools enables fast accumulative tabulation of splicing events over multiple BAM files.

Availability and implementation: rbamtools is available on CRAN and on R-Forge.

Contact:kaisers@med.uni-duesseldorf.de

Supplementary information:Supplementary data are available at Bioinformatics online.

"

(Via Bioinformatics - Advance Access.)