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We want to be able to include some standard basic statistics on the gene/protein annotation set for an assembly in a genome note. This sub workflow should accept an annotation set and calculate some s…
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The following axioms should be created/updated from OMIM:
'has material basis in germline mutation in' some GENE
- gene-to-disease information from OMIM, based on rules discussed HERE (need to be…
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We can require this as a preprocessing step, or add an arg in `create_gene_binary()`. We will think on it more and maybe ask Caroline and Alli for preference.
Maybe we want to do fuzzy matching to…
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Hi there,
Thank you again for creating this wonderful tool! I had a question regarding your fusion gene analysis in your recent biorxiv paper: https://www.biorxiv.org/content/10.1101/2021.04.21.440…
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We need to create some mondo subset files for use in KGs along the following lines:
- Rare disease subset
- Rare disease subset with leaf nodes representing variants in same gene rolled up to pare…
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The traceback:
```
Error in py_call_impl(callable, call_args$unnamed, call_args$named) :
FileNotFoundError: [Errno 2] No such file or directory: '/home/rstudio/workspace//data/SspArc0008_10x_c…
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Hi,
I was testing the new release of IsoQuant and I found this error:
```
2024-05-11 15:15:01,206 - INFO - Running IsoQuant version 3.4.1
2024-05-11 15:15:01,527 - INFO - Novel unspliced trans…
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Hi, thanks for making IsoQuant, when i run my ont sequencing data, i got the following error. would you please kindly help to fix it. many thanks! :)
Command line: /home/cario/bin/miniconda3/envs…
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Processing my input data with your preprocessing and annotation pipelines, I get the input files for running the seed gene discovery pipeline (except the phenotypes parquet, which I created).
In `rul…
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Hello,
I'm using the development version of SCENIC+.
When running the snakemake pipeline, it seems to get stuck on 'download_genome_annotations'...
Contents of my Snakemake folder:
-rw-r…