updated 22 days ago by
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Thank you! I ended up using the transcripts_to_genes instead of biomart.
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Please be specific. Which TCGA subset, what did you try? Show code.
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A good tool for mitochondrial genome assembly is GetOrganelle (https://github.com/Kinggerm/GetOrganelle)
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Please do not use `bioinformatics` as a tag unless your post in about the field of bioinformatics itself.
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I've removed unneccessary tags - `meta` and `how-to` don't apply to this post at all, and the `forum` tag is not in use anymore.
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I assume you have posted this in nanopore community and/or on the dorado issues page on GitHub. Please come back and post an update once yo…
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We get this question like clockwork every 6 weeks.
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Thanks very much for your feedback! I will take all those things in consideration once I start the analysis!
Just out of curiosity, do yo…
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A combination of bash and awk can do the work, suppose you have the gff file annotation of your gene of interest
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https://www.biostars.org/p/385786/ ; <br> https://www.biostars.org/p/276608/ ; <br> https://www.biostars.org/p/411934/ ;etc...
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How …
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I would have thought `needle` from EMBOSS would be the option to use.
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ok, then you should add the donor information to the PCA analysis. First create a separate dataframe for the donors, then add with `factor`…
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If you are willing to do some coding I think <https://github.com/smarco/WFA2-lib> is among the fastest global aligners, the repo has C++ ex…
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There is an API that you could try: https://www.ebi.ac.uk/pride/markdownpage/prideutilities
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