We currently have a version (0.0.2) of the Ostrea lurida genome on CoGe. This is 38 scaffolds greater than 80k bp. Below is an effort to map gonad RNA-seq data to said genome.
Two male gonad and two female libraries were mapped to the genome using TopHat in Cyverse Discovery Environment.
Through the steps…
I moved the data in Discovery Environment to coge_data directory.
Will see what Expression Analysis does…
This created two files and corresponding tracks: read depth and BAM alignment
Will crank out other three libraries and soon will work on rough annotation.