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Comment: Getting the best of RNA-Seq
by
Antonio R. Franco
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By rational means that after running a GO enrichment, you ended with a set of reasonable set of transcripts (not genes) that could related …
Comment: Getting the best of RNA-Seq
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Antonio R. Franco
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This is the actual problem. If you are using as reference for the mapping a fasta file containing isoforms, your analysis should be address…
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If these are unsorted files, why would you need the last read? Couldn't you pick a random read or the first one?
Comment: Getting the best of RNA-Seq
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>To mention, I started to use Kallisto and DESeq2 to see that after importing the data with the tximport package using the txOut = FALSE or…
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Can you specify a bit more what the end goal is? I.e. what type of data (processed, raw, ...) would you like to download and what would you…
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Are the long reads very different from each other (e.g. covering different regions of the genome) or do they all represent the same (more o…
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The [`dittoSeq`](https://github.com/dtm2451/DittoSeq) package also offers a [`dotPlot` function](http://bioconductor.org/packages/release/b…
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Hello https://www.biostars.org/u/110969/,
Welcome to the forum!
Please use the formatting bar (especially the `code` option) to present y…
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The size is 24661059 and I waited aroun 10 mins
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It is unclear to me what the question is. Do you want gene-level or transcript-level analysis? From what I know gene level analysis does no…
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Unfortunately, I have no experience whatsoever with yeast or GRN, but I recall [this article by de Boer et al.][1] that might be helpful. I…
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it runs for a very long time, i wanted to know whether there's some shorter-running alternative
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what's wrong with this tool ?
Comment: How to find average read length and number of reads in a bam file using samtools
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duplicate of your previous question : https://www.biostars.org/p/9528211/
> I used first samtools stats file.bam | grep "average length" b…
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Your question title doesn't fit properly the question body: please fix it.
You're not counting multimapping reads based on your command s…
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