Hi, I have three biological replicates for my experiment. I wonder how should I merge the accepted_hits.bam out of Tophat for doing Pathview/gage analysis for "RNA-seq Pathway and Gene-set analysis workflow"? Let's name the accepted_hits.bam replicates as 1.bam 2.bam and 3.bam for the sake of short writing.
I have a thread on biostars.org
I have a thread on biostars.org
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