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Old 05-09-2012, 06:45 AM   #1
bruce01
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Default IQseq help needed

Hi,

can't find anything about IQseq on search so I am wondering about the various parameters:

(i)the isoform file is a merge of all reads/transcripts for a single sample, but I have to use RSEQtools mergeTranscripts. I can't figure out how to make this, going from my aligned file (bam/sam).

(ii)similarly where does the gene to isoform mapping file come from?

I have on flowcell worth of PE and one SE data so IQseq seems ideal for my mismatched dataset. Hopefully someone has used (or written!) the program and can help me out.
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