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Forum: Bioinformatics 03-30-2011, 12:03 PM
Replies: 1
Views: 1,849
Posted By mr_boourns
pileup output different using Maq and Samtools commands

Dear all,

We are trying to detect allelic specific expression with RNA-seq data by mapping against a masked genome (with the reference allele substituted for N's at known SNP positions). We have...
Forum: Bioinformatics 04-27-2010, 08:23 AM
Replies: 0
Views: 1,058
Posted By mr_boourns
maq mapcheck

Hi all,

I was wondering does anyone have any experience using maq mapcheck to estimate the different substitution rates by substitution type. After an RNAseq analysis I get the following as the...
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