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

Hi

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.

thatnks

sequencing alignment • 614 views
ADD COMMENTlink written 2.8 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 2.8 years ago by genomax65k
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