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Dear MAVIS team.
Hi I'm Oh.
I have two questions.
Q1. If I change reference or annotated files, can I visualize viral integrations?
Q2. I found the following fusion. (the Promoter of TP53…
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Is it possible to link the results in the files viral_read_report, summary_integration, and the generated images? Specifically, can we identify which reads in the viral_read_report file correspond to…
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(A) I slightly misunderstood---ClinBx uses two tools for viral integration. They do the Delly BND trick, but they also use an alignment-based tool:
https://github.com/G100DKFZ/gene-is
(B) I reco…
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Hello :)
I have a question regarding viral-ngs and its capabilities for detecting virus integration and outputting the results to a text file. I tried to understand the explanation provided in the …
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https://github.com/namphuon/ViFi
Docker image and Dockerfile is there.
I think this tool makes more sense than GENE-IS; we're investigating if there are differences.
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Hi,
The definition of the term GO:0019035 'viral integration complex' states that it contains host proteins.
Definition (GO:0019035 GONUTS page)
A nucleoprotein complex containing viral ge…
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Potential 5th flame. Check the viral contig coverage output from DRAGEN (tracked in MultiQC plot).
Trello: https://trello.com/c/G6EOZVaG/1434-debug-check-for-ebv-integration
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### Sanity checks
- [X] I have searched [github.com/withfig/fig/issues](https://github.com/withfig/fig/issues?q=) and there are no duplicates of my issue
- [X] I have run `fig doctor` in the affected…
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Hello,
I would like to use Survirus to detect integration sites in human cancer cells from RNA-seq data.
I'am currently testing the tool on the sample L526401A for which viral integration site hav…