In RNA-Seq, While we have our list of DE genes, selecting a specific transcript/isoform for gene synthesis is not straight forward. How to generate a transcript sequence derived from a contig of the transcript sequences obtained in the RNAseq experiments? Cheers
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Are you asking if an overall consensus sequence can be generated for a gene from a set of mapped reads?Last edited by GenoMax; 03-10-2015, 09:11 AM. -
If you have a linear contig then isn't that the consensus sequence for that transcript or are you referring to a region in the alignment file (where multiple reads are piled up) that you want to derive a consensus sequence from?Comment
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For a particular gene, what is the splice variance ? from Alignment file e.g. bam or sam.Originally posted by GenoMax View PostComment
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Originally posted by GenoMax View Post
‘If you have a linear contig then isn't that the consensus sequence for that transcript’
Yes. And how to get the contigs for each?
I want output a sequence as a result of generating a contig from the mapped sequence data. Thank you!Last edited by super0925; 05-29-2015, 02:44 AM.Comment
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