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Go with either, just mention which one you use and what version of it you're using. Personally, I go with VEP because it's been historicall…

I used non-redundant protein sequence (nr) in blastp. Galaxy only allowed tick options and upload files, I didn't use hints and specify pre…

My vote in these situations is generally `rlog` or `vst`. They implement both library size normalisation and variance stabilisation. I woul…

Hi, I am having this same problem as OP right now. When I do the echo $PATH command, it returns: /Users/chachonos/sratoolkit.3.0.0-ma…

You're right, thanks for catching that. Here it is: https://genanalyzer.pythonanywhere.com/. Let me know what you think :)

Thanks for all the inputs.

Since you have publications associated with this data (based on your last thread and a question before that) don't try to do this analysis …

Thank you so much, you were really helpful!Do you think it is possible to do some kind of analysis to evaluate positive selection or mainl…

I doubt your RNA quality is the issue. It's not likely that poor quality would cause reads to align to the wrong gene. Its far more likely …

The RIN values for these samples ranged around 6.0-7.0, which I think would suggest RNA degradation. From what I am aware of, I don't think…

You can do a de novo assembly and then scaffold the contigs using a reference by RagTag (https://github.com/malonge/RagTag). However, I per…

The difference between (A or T) and (G or C) may reflect the GC composition of the genome. Thus, it is not indicative of some sequencing pr…

What do you mean by "non-raw" data? You're correct in that grabbing arbitrary values on different scales and trying to mash them together i…

None of the tags you used are relevant to the question you asked - they broadly describe the entire field of bioinformatics. I've fixed it …

Hi @slzr_In short, no. What I mean is, it’s generally not recommended to use Mutect2 calls directly for classical population genetics ana…