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Dear LongGF developer,
Thank you for presenting the user-friendly software! I have two questions about the output: 1. LongGF outputs gene pair orientation sometimes do not follow the ground truth …
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I attempted to use the convert to cff helper script provided, however the format outputted is not matching the expected output and it appears the wiki is outdated on how to utilize the tool. The conve…
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Hi Pall,
Thanks for making pizzly. I've been working on adding support for it and some other fast fusion callers to bcbio and have been seeing if I can figure out some way of filtering the fusions …
roryk updated
6 years ago
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Is there a way to get rid of duplex foldback chimeras? It doesn't seem like Dorado splits the + and - strand of duplex reads into two reads. I mean I suppose technically they're the same read, but tha…
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# Backend
- [ ] remove fusions from the mutation_event table and leave existing fetch mutations endpoints un-touched.
- [x] add a new web service endpoint to pull fusions out from the new structural…
jjgao updated
6 months ago
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No fusion detected with the demo data
genefuse -r hg19.fasta -f genes/druggable.hg19.csv -1 R1.fq -2 R2.fq -h report.html > result
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VR needs to have a path for representing translocations.
Allele is currently defined as a contiguous sequence change at a single location. Translocations and junctions are unlikely to fit in that m…
reece updated
6 months ago
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Dear,
We succesfully implemented CTAT-splicing in our STAR-fusion pipeline.
**1) we pick up all our relevant fusion genes using STARfusion**
**2) we correctly picked up METx14del,** without fal…
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Hello @brianjohnhaas,
Just an idea for future improvement.
It would be super useful to know what the total fusion transcript length is for any outputted fusion.
What's the easiest way to calc…
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Hello. Do you have a vignette for identification of fusion transcripts using Seurat scRNA-seq data (row= genes, columns=cells)? Thank you!