Entering edit mode
2.2 years ago
bio_elle
▴
10
I am looking at the output of a gene fusion detection tool (genefuse), and part of it:
"ALK_ENST00000389048.7:exon:20|-chr2:29223527"
has the nomenclature with +chr or -chr, at first I thought that it could be the strand direction but then I saw that in the same file there is the strand direction, and they can be different (-chr can be associated with reverse or forward strand and same for +chr).
Since it is not the strand I would like to understand what it means but I can't seem to find anything online about this type of nomenclature.
Did you read the tool documentation and the publication?
Ouch
Yes, I have read the documentation on the github repository and the paper but I did not see anything.
It probably is written somewhere in there but since I have no idea of what it is referring to I must have missed it.
You've done all the digging you can do - I'd recommend either emailing the authors or using more Google skills to find other tools/papers that use this convention and see if they say something about what the notations mean.