Dear SEQanswers Community,
Can anyone recommend a program from mapping DNA reads to transcripts? I have ~ 500 transcripts as a reference. I have DNA reads (Illumina 100 bp paired-end) from an exon-targeted sequence capture enrichment from genomic DNA that I want to map to these transcripts. These sequences should contain the target exons, but also likely have intron sequence on their ends. I think I need a program that will keep/map the reads if (for example) 50 bp of the read matches (i.e the exon), and then clip off the remaining read when it lands on an exon-exon boundary of my transcript.
Any suggestions?
Thanks!
Can anyone recommend a program from mapping DNA reads to transcripts? I have ~ 500 transcripts as a reference. I have DNA reads (Illumina 100 bp paired-end) from an exon-targeted sequence capture enrichment from genomic DNA that I want to map to these transcripts. These sequences should contain the target exons, but also likely have intron sequence on their ends. I think I need a program that will keep/map the reads if (for example) 50 bp of the read matches (i.e the exon), and then clip off the remaining read when it lands on an exon-exon boundary of my transcript.
Any suggestions?
Thanks!
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