I am running tophat index/mm9 1.fastq
to get accepted_hist.bam
The running process has no error. But 1.fastq has 1Gb, accepted_hist.bam only has 470K.
So What does it mean? It means only a few reads has mapped to reference genome?
I downloaded mm9 from bowtie website and contructed a .fa file using bowtie-inspect mm9 > mm9.fa
Anyone know this problem?
thanks!
to get accepted_hist.bam
The running process has no error. But 1.fastq has 1Gb, accepted_hist.bam only has 470K.
So What does it mean? It means only a few reads has mapped to reference genome?
I downloaded mm9 from bowtie website and contructed a .fa file using bowtie-inspect mm9 > mm9.fa
Anyone know this problem?
thanks!
Comment