I've just started exploring SeqMonk, just looking at human total RNA-seq data to check the distribution of different types of RNA.
However, when I run the RNA-seq QC plot option I get the following error:
I imagine this is systemic of some larger discrepancy in my analysis (or at least I hope so, because this was an rRNA-depleted data-set that SeqMonk is claiming has ~75% of reads in rRNA!), but I can't seem to find what that may be.
The steps up to here basically involved using the iGenome hg19 as a custom genome, importing my accepted hits from TopHat, setting probes from the default running window generator settings and then doing basic read count quantitation.
Have I just done something silly, or is something strange afoot?
However, when I run the RNA-seq QC plot option I get the following error:
Percent in exons was >100 for accepted_hits.bam
The steps up to here basically involved using the iGenome hg19 as a custom genome, importing my accepted hits from TopHat, setting probes from the default running window generator settings and then doing basic read count quantitation.
Have I just done something silly, or is something strange afoot?
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