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Recent Replies
Comment: gtf file for canFam2 genome version
by
1769mkc
★
1.2k
yes I'm looking for this canFam2 only that for some specific cases I have to use, even though I have the newer version also
Answer: Bioinformatics
by
Mensur Dlakic
★
29k
STRING works with derived data, which means they don't do any analyses on their own. You may get some information by clicking on links with…
Comment: Absolute vs. differential gene expression - which analysis is more informative?
by
Mensur Dlakic
★
29k
I don't think you will find a single person on this forum who will advocate for absolute expression analysis. In fact, almost the same ques…
Comment: Reproducibility Crisis
by
Mensur Dlakic
★
29k
This pretty much covers all the common reasons. I will add an anecdote to further illustrate the difficulty. Not too long ago I was trainin…
Comment: gtf file for canFam2 genome version
by
GenoMax
150k
Are you specifically looking for `canFam2`? Likely because newer versions available now: https://www.ncbi.nlm.nih.gov/datasets/genome/?taxo…
Answer: Reproducibility Crisis
by
GenoMax
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> What could be the reasons for this?
Many. At a minimum not using the same exact versions of software, command line options, input data e…
Comment: Question about an alignment
by
GenoMax
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> bwa is making the alignment work by throwing away half the read.
We don't know that based on the info above. It looks like out of the 13…
Comment: does any licenses needed to make experiments?
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If you are a vegan and you have never even hurt a bug, then do not start hurting your fellow non-human beings now.
Comment: Question about an alignment
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So CLC is making the alignment work by inserting a big gap, and bwa is making the alignment work by throwing away half the read. I'm incli…
Comment: Strange overrepresented sequence
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georomano
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I did see that one. I do wonder why these seqs would be over-represented in R2 and not R1... anyhow, as all of you mention, I will go ahead…
Comment: Strange overrepresented sequence
by
ATpoint
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Seconding this. Please don't overinterpret these fastqc results. It's really just a crude QC check. Go along with your analysis.
Comment: Non variants sites of the genome (gVCF file)
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heureuse
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Hi, thank you for your reply. Yes I have to use gVCF
Answer: does any licenses needed to make experiments?
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Joe
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As others have pointed out, for **physical** experimentation on animals (other than most invertebrates) you not only need a personal licens…
Answer: Strange overrepresented sequence
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GenoMax
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It is 0.1% of the total sequence. Nothing you likely need to worry about at this point.
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