trmap alternative for gffcompare?
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4 months ago
Akash D ▴ 10

I have two simple questions

1.Can trmap used as an alternative for gffcompare when trying to identify novel transcripts?

  1. How to interpret the output file of the following code $trmap -S -o charles <ref_gff> <query_gff>

Here, reff_gff used = my annotation.gff3 file query_gtf used = stringtie_merged.gtf file

I am not able to find enough resources to understand the output file ''charles". PFA "charles" charles screenshot

Please help

Best, Akash

GffCompare Novel-Transcripts StringTie RNA-Seq • 124 views
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