Digital expression (DE) is an important application of RNA-seq technology to quantify the transcriptome. The number of mapped reads to each transcript or gene varies under different conditions and replicates. Currently, three different statistical algorithms (edgeR, DESeq and bayseq) are available as R packages, to compare the reads to identify significantly expressed transcripts or genes. So far, users have to manually install and run each R package separately. It is also of users' interest to compare the results of different approaches. Here, we present a pipeline DEB which automates all the steps in file preparation, computation and result comparison.
Availability: The database is available for free at http://www.ijbcb.org/DEB/php/onlinetool.php.
Keywords: DEB; DESeq; RNA-seq; baySeq; digital expression; edgeR; nextGen sequencing.