Question: projecting short reads on the transcript
gravatar for ashkan
3.6 years ago by
ashkan110 wrote:


I am going to project short reads (from sequencing) on the transcriptome. does anyone know how I can do that. my final goal is to get the density of reads from start to stop codons.


sequencing alignment • 739 views
ADD COMMENTlink written 3.6 years ago by ashkan110

If you are aligning reads then in a way you are doing that already. If projection means visual display then a genome browser tool like IGV would be appropriate. An interval file and a package like featureCounts would allow you to get "density" (# reads) at any position.

ADD REPLYlink written 3.6 years ago by genomax78k
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