Entering edit mode
7.6 years ago
Max Ivon
▴
140
Hello! I have performed alignment of paired-end data with tophat with the following options:
tophat --no-coverage-search --max-multihits 1 -p 4 -o <...> <...> <...> -G <...>
What would be the easiest way to remove read pairs coming from fused transcripts based on annotation provided with the "G" options?
Thanks in advance.
Some tools may be old but take a look at this: Gene Fusion Detection: Rna-Seq Data