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Recent Replies
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Can you clarify what `metainfo` you are referring to?
The accession that you refer to does exist in [**GenBank assembly_summary file**][1…
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Specifically:
If we want to look up all the places where a 31mer is in a genome without and index, we have to compare that 31 to the first…
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This is way easier to do solely in R now 10 years later.
library(GenomicFeatures)
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Answer: what is the purpose of indexing the reference genome (Kallisto)
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I'll see if I can explain things in super simple terms (albeit with some abuse of the actual technical details) to provide a conceptual und…
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The updated code in R using rtracklayer for reading a gtf file.
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Thank you LauferVA,
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You cannot do it with Kallisto either. In fact, the indexation will fail in attempting to index a genome file
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What is your question? Add details and clarity. Ask a precise question and please avoid opening more questions on the same underlying issue…
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If you have the accession numbers can you not use something like `eutils`?
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> Next, I tried using bedtools window
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Thank you very much! I tried it out! This is a handy tool useful for many different applications, and in regards to my problem - although …
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Thank you for replying Pierre.
I first added a third column to the SNP bed file, so that I would get a range of 1 for each SNP
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> using bcftools
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