fusioncatcher
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ndaniel
Finder of Somatic Fusion Genes in RNA-seq data
Hello, I was wondering if any thoughts or questions have been raised in the past about porting the project to Python 3, given the unsupported status of Python 2. I...
Hi Daniel, i have noticed the same issue in version 1.33 for IGH@ locus and MYC. Could you please have a look at it? Thank you. ### IGH@ chr14:105,556,000-106,883,700 (hg38...
We are re-analyzing an cohort of samples done several years ago, and we would like to use the same ENSEMBL/GENCODE version that was used previously. Is there any way to...
Hello, I am trying to run fusioncatcher 1.33 on the samples: SRR5484560 -> https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR5484560 SRR5484561 -> https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR5484561 However they fail at step 101. It seems BBDuk gets confused with N...
Hello, I got error. ``` $ fusioncatcher -d ./fusion_test/Human/ -i ./fusion_test/Sample_001/ -o ./fusion_test/Fusion_001/ Checking Python version... * Compatible Python version found! Checking size of installed RAM memory ... * 191870...
It looks like velvet is no longer being hosted at http://www.ebi.ac.uk/~zerbino/velvet/velvet_1.2.10.tgz. I found the same release on github: https://github.com/dzerbino/velvet/archive/refs/tags/v1.2.10.tar.gz
Hi! I've tried several ways to download the genome of rattus_norvegicus, but it seems to always fail with a: ``` Downloading the genome of organism 'rattus_norvegicus' from Ensembl! 230 Login...
Hi all, I am using the latest fusioncatcher build from github for fusion prediction in a set of solid tumor samples. However, the results in the summary table include many...
Hello, I just installed fusioncatcher through conda: ``` conda create -n fusioncatcher-1.20 -c conda-forge -c bioconda fusioncatcher=1.20 ``` After installation, it fails to run because bowtie can not found `libtbb.so.2`:...
Hi, I am running the FusionCatcher version 1.33 on single end RNA seq data with the following command: `../fusioncatcher/bin/fusioncatcher -d ../fusioncatcher/data/current/ --single-end --input ../from_Julia/ACGI428/FGC1222/ --output ./fusionCatcher_output/` It started unzipping the...
