Creating a Custom ArchRGenome: what about transcripts? #893
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In https://www.archrproject.com/bookdown/getting-set-up.html, it says creating a geneAnnotation object from: A “genes” object What about transcripts? Generally, a gene contains multiple transcripts, and a transcript contain multiple exons. |
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Replies: 2 comments 1 reply
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By default, ArchR deals with genes for simplicity. If you really care about transcripts, presumably you can create a custom genome where the transcripts each have unique names and are treated as if they are individual genes. I've never done this but it should work. The important part is that the entry in the |
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Also please note that Issues are only for bugs. Discussions is where questions and feature requests belong.
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Thanks. I'll have a try then |
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By default, ArchR deals with genes for simplicity. If you really care about transcripts, presumably you can create a custom genome where the transcripts each have unique names and are treated as if they are individual genes. I've never done this but it should work. The important part is that the entry in the
geneAnnotationobject is called "genes"