Hello,
i know that Tophat is one of best choices to get exon-exon structures with short reads but my problem is that the sequencer got problems with their laser while detecting the nt. So all of the reads (completly 82 bp) get an "N" at Postions 54 / 55 of 82. My question ist can TooHat or even BLAT handle this?
regards
Philip
i know that Tophat is one of best choices to get exon-exon structures with short reads but my problem is that the sequencer got problems with their laser while detecting the nt. So all of the reads (completly 82 bp) get an "N" at Postions 54 / 55 of 82. My question ist can TooHat or even BLAT handle this?
regards
Philip
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