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Quality control step #5

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ipurusho opened this issue Dec 5, 2013 · 1 comment
Closed

Quality control step #5

ipurusho opened this issue Dec 5, 2013 · 1 comment
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QC
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Phase 1: Alignmen...

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ipurusho commented Dec 5, 2013

Quality control outputs should include Read count and %'s for the following:
Mapped
Unamapped
rRNA
Mitochondrial RNA
Intragenic regions
Exons
Introns
Intergenic regions
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ipurusho commented Dec 5, 2013

Genomic region mapping rate may be carried out through bedtools. If so, associated bed files will have to be given a static path, as described in #3

@ghost ghost assigned ipurusho Dec 19, 2013
ipurusho pushed a commit that referenced this issue Jan 10, 2014
@immanp
Simplifies #5, outputs broad overview of mapped reads
34c0cad
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