Comments (4)
@WangKang-Leo I patched a fix in the master
branch. Before I publish a new release, can you try it out?
git clone https://github.com/murphycj/AGFusion.git
cd AGFusion
pip install .
agfusion batch -f UF-3016-1102-2.FusionInspector.fusions.txt -a fusioninspector -db agfusion.homo_sapiens.95.db -o output
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Thanks for your prompt response, it runs smoothly!
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Hello, I'd be happy to try it out! Do you have an example output from FusionInspector? I can then take a look to see if/how to parse it.
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Hello, I'd be happy to try it out! Do you have an example output from FusionInspector? I can then take a look to see if/how to parse it.
Thanks so much! Here I attached the output from FusionInspector.
UF-3016-1102-2.FusionInspector.fusions.txt
UF-3016-1102-2.FusionInspector.fusions.abridged.txt
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Related Issues (20)
- Ensembl 96 support HOT 2
- Frameshift fusions warning HOT 1
- Unable to download database(agfusion.homo_sapiens.94.db) HOT 2
- Frame issues HOT 4
- Failing on gene names containing '/' HOT 1
- Potential dependency conflicts between agfusion and numpy HOT 1
- issue for running agfusion
- 5' UTR sequence not included when 3' gene junction is in 5' UTR
- Pyensembl Version
- Build database for Ensembl 100 HOT 4
- Support for arriba HOT 1
- STAR-Fusion input HOT 1
- support for LongGF (new fusion finder for long read sequences)
- Bio.Alphabet has been removed from Biopython. HOT 1
- Please note that I do not actively maintain this repo anymore
- Issues with agfusion batch: TypeError: save_images() got an unexpected keyword argument 'plot_WT' HOT 1
- Using agfusion build command for ensembl >v95? HOT 3
- can we use AGFusion for annotating gene fusions detected in plant?
- Certificate expired on www.agfusion.app HOT 2
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