RseqFlow

RseqFlow is a pipeline tool for RNA-seq data analysis for single-ended reads produced by the Illumina platform. The RseqFlow includes functions for sequencing quality control, mapped reads signal tracks, post mapping quality control, expression level computation, identification of differentially expressed genes, and calling single-nucleotide polymorphism (SNPs). RseqFlow is run by the Pegasus Workflow Management System and is available as a complete Virtual Machine. It can also run in a UNIX command-line mode and users can run each analysis separately. However, the authors no longer support the project.