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Hi
I seem to be getting a incompatibility and associated warning when using the protein_domains_hg38_GRCh38_v2.0.0.gff3 file that comes with arriba. It's a long list of warnings all saying unknown g…
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Hello @julianhess,
I have successfully run MutSig2CV and also got the sig_genes.txt in the output folder. However, the genes name that is there in the sig_genes.txt is from HGNC_Previous_Symbols co…
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Hi
Thanks for sharing the dataset and codes.
I am trying to use a simple CNN classifier to classify the grade of the GBMLGG dataset into 3 classes (2,3,4)
I am using the same split of train…
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- Describe the issue or question:
I am trying to analyse 2D-TPP data (5x TMT10plex in fractions) using the bioconductor package TPP2D. The package expects the input data (protein level abundance es…
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Hi
I have that arriba and starFusion/FusionInspector occasionally differ in opinion when it comes to calling the fusion protein frame when they have the same breakpoint coordinates - see below for …
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**Is your feature request related to a problem? Please describe.**
Using cluster configuration in snakemake is deprecated. Profiles are the future.
**Describe the solution you'd like**
We should …
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* pvactools version: 3.0.1
* Python version: 3.6.15
* Operating System: CentOS 7
**Describe the bug**
Using -a sample_name option with pVACfuse outputs .tsv files with "Sample Name" column that …
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When running the utility on a current download of the NCI Thesaurus (the owl file, converted to nt), the conversion appears to succeed, however, many of the lines in the final ntriples output are inva…
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Downloaded isofox_v1.5.jar, and with java -jar isofox_v1.5.jar, it returns "15:24:05 - [INFO ] - Isofox version: 1.4".
Also, while Isofox 1.4 runs to completion, but with the same commands:
` modu…
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Example: https://mila.quebec/en/publications/
It would be nice to reuse the same code as in the Mila website. Not sure if that's 'easily' possible via RTD