I am working on RNA-seq data and i used hg19 genome as reference. I used TOPHAT and generated accepted.hits.bam file.
I ran cufflinks onto it for transcript assembly differential expression. It generated 3 files namely
I am interested in some of the genes whose genomic coordinates i have in bed format
Is it possible if i can extract those results from the files generated above for my list of genes.
Hope to hear from you guys soon