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I use 10 samples and analysed both by GRCH37 and GRCH38. I conpared the ***filtered.tsv and unfiltered.tsv between GRCH37 and GRCH38. The fusion genes and locations were all different. No same result…
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Hi there,
As stated in the title - does pvacfuse derive the START/STOP of the fusions from it's own build of reference genome, or is that information taken from the output of AGFusion? I am asking …
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Hello I am trying to run the example with this user_ini.path
```
[annovar]
convert2annovar = /home/davide.rambaldi/src/annovar/convert2annovar.pl
annotatevariation = /home/davide.rambaldi/src/an…
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Hello developer!
Thank you for the wonderful tool you put together.
I got an error which I don't know where it come from. Running test worked fine, but when I use the real data it results in this …
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For some runs it is desirable to annotate variant results from the pipeline with those that were also called in another pipeline. For example these could be variants from a CLIA/CAP pipeline and chec…
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https://mp.weixin.qq.com/s/Rm1UOCIrGllYl_za609W5g
ixxmu updated
10 months ago
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Hi,the following error occurs when I run NeoFuse
`NeoFuse -1 /home/myname/data/neoantigen/1.fastq.gz -2 /home/myname/data/neoantigen/2.fastq.gz -s /home/myname/ref/neofuse/STAR_idx/ -g /home/myname/r…
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Our current reliance on INTEGRATE (for fusion detection) and INTEGRATE-NEO for annotation of the fusion junction peptide is problematic.
It would be desirable if we could support fusion calls from …
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I ran arriba 2.3.0 using gencode.v38.annotation.gtf with STAR 2.7.10a mapped tumor RNA-seq data (with SV vcf from GRIDSS-PURPLE) using the -I option, with the goal of extracting data from the peptide_…
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Hi everyone!
Testing the installation resulted in the following error for me:
```
# neofox --candidate-file test_data.tsv --patient-data test_patients.tsv --output-folder output --with-table --w…