Create a GTF file from mapped reads
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3.3 years ago
JulianC ▴ 20

Hi!

How can I create a GTF (or SAF) file starting from mapped reads? Thanks!!

genome GTF SAF • 1.2k views
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Please elaborate on what you want to do. Do you want to perform a full-fledged annotation of a novel genome? Or do you want to find novel transcripts on an already annotated genome? Are your our reads RNAseq, DNAseq, ChIPseq, ...?

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Sorry, my reads come from miRNA seq. I want to find novel transcripts on an already annotated genome

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3.3 years ago

If this is RNAseq data, use Stringtie.

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