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Hello all,
I might be missing other threads about this here. But in terms of generating expression profiles from RNA-Seq data, I am wondering if there is another way (or software) to assign those reads with multiple mapping to any location of the reference rather than randomly choosing one of hits (like bowtie, bwa).
In other words, if readA can be mapped to geneX and geneY with high quality score and I don't want to throw the information away by trying to evenly assign 0.5 reads to each transcripts or assign it by other ways. How can I do that?
Thank you!
I might be missing other threads about this here. But in terms of generating expression profiles from RNA-Seq data, I am wondering if there is another way (or software) to assign those reads with multiple mapping to any location of the reference rather than randomly choosing one of hits (like bowtie, bwa).
In other words, if readA can be mapped to geneX and geneY with high quality score and I don't want to throw the information away by trying to evenly assign 0.5 reads to each transcripts or assign it by other ways. How can I do that?
Thank you!