RNA-Seq of Pathogens

pathogen portalThe Pathogen Portal now offers links to the pathogen analysis pipeline portal of Galaxy.

Currently with this pipeline you can:

Map your RNA-Seq Reads to Reference Genomes
-Align your Illumina fastQ reads (gzipped fastQ files accepted) against any sequenced genome from EuPathDB, PATRIC, and VectorBase.
Estimate Gene Expression Values
-Obtain BAM files for the resulting alignments and FPKM expression values for annotated genes and novel transcripts