Dear colleagues,
I have started working with RNAseq very recently and got stuck with the following:
- Should I map my reads to the whole human genome or only to the chromosome I am interested?
I've seen mapping to a single chromosome can skew my data, but it took 2 days for tophat to map the reads of a single RNAseq library to a single chromosome (I am on an octa-core PC running Ubuntu).
Should I definitely buy access to a cluster or there are ways to over come this?
I have started working with RNAseq very recently and got stuck with the following:
- Should I map my reads to the whole human genome or only to the chromosome I am interested?
I've seen mapping to a single chromosome can skew my data, but it took 2 days for tophat to map the reads of a single RNAseq library to a single chromosome (I am on an octa-core PC running Ubuntu).
Should I definitely buy access to a cluster or there are ways to over come this?
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