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hi, Thanks you for the wonderful software which can analysis virus integration, and i have two questions.
firstly, when integration sites were near to each other, then it would sum to one site, so …
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HI, thanks for your wonderful/excellent software.
And I have one question, maybe you can give me some ideas, there are two types of reads that can be used to find the integration sites for PE reads…
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Hi, thanks for your useful software, and we faced a interesting issue, maybe you can give us some advice; we have run ctat_vif to detect virus-host integration sites in both DNA and RNA sequencing dat…
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### Description of feature
https://github.com/broadinstitute/CTAT-VirusIntegrationFinder/blob/228040dd4ab15ee73b7249698e4a240ad7624e99/WDL/ctat_VIF.wdl#L1198
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### Description of feature
https://github.com/broadinstitute/CTAT-VirusIntegrationFinder/blob/228040dd4ab15ee73b7249698e4a240ad7624e99/WDL/ctat_VIF.wdl#L1307
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https://github.com/broadinstitute/CTAT-VirusIntegrationFinder/wiki#virus-insertion-viewer=
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https://github.com/broadinstitute/CTAT-VirusIntegrationFinder/wiki#virus-infection-evidence-viewer=
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https://github.com/broadinstitute/CTAT-VirusIntegrationFinder/wiki#virus-insertion-site-candidates-and-read-counts=
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Hi,
I am running VIF via Docker, with additional arguments for number of threads and output directory name - however those aren't being recognized. STAR still seems to run using 4 threads (the defa…
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Hi @brianjohnhaas,
We had a great experience using this tool last year for an intern project. I'm trying to replicate/scale up some of the work they did and would love to wrap this method into a n…