Hello all,
I used picard tool CollectRnaSeqMetrics on my RNA-seq fastq files and I found a lot (> 50%) of intronic region.
I wonder if these intronic regions are equally distributed among the genome or otherwise if my reads are aligned one only few genes.
How can I see it ? Is there a way to extract only intronic regions from a BAM file ?
Or maybe there is a way to extract only reads which mapped on intronic regions and see where they're aligned ?
I used picard tool CollectRnaSeqMetrics on my RNA-seq fastq files and I found a lot (> 50%) of intronic region.
I wonder if these intronic regions are equally distributed among the genome or otherwise if my reads are aligned one only few genes.
How can I see it ? Is there a way to extract only intronic regions from a BAM file ?
Or maybe there is a way to extract only reads which mapped on intronic regions and see where they're aligned ?
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