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Comment: Help with running egsea()
How Can I Interpret A Multiple Sequence Alignment?
Comment: Gene density plot
A: Regarding Split reads and discordant reads
Comment: student
Comment: Repeated testing/data mining in RNA Seq
Comment: UMI-Tools knee-method has great influence on the results of white list
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Comment: Help with running egsea()
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1769mkc
★ 1.2k
please provide the design matrix mean the metadata of the model fit2 which is there in the code . i guess other users can help
Comment: Applying the metacell2 algorithm using python
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JACKY
▴ 140
The repo does not provide any valuable information unfortunately. The Metacell algorithm they provide in the vignette is missing the metagr…
Comment: Repeated testing/data mining in RNA Seq
by
robert.flynn.21
• 0
Thanks! I'll give it a go.
Comment: Applying the metacell2 algorithm using python
by
Wayne
★ 2.0k
Yes, they are very clear about this. The page about the Vignettes says: >"They are not meant as a comprehensive documentation of all the fe…
Comment: Gene density plot
by
dthorbur
★ 1.9k
This sounds like it would be a simple task in either python or R. Read data in, potentially with a library like `data.table` in `R`, depend…
Answer: HLA-HD tool for genomic imputation
by
Javier
• 0
Hi, I just solved the same error. In my case, it was because I misunderstood the instructions. hlahd.sh -t 4 *-f ~/hlahd.1.7.0/fr…
Comment: Question regarding WGCNA
by
andres.firrincieli
3.6k
Ok, then. You likely have a scale free topology that look like this: [link][1] In this situation you should pick the power value with an …
Comment: Bioinformatics Analyst - Laboratory Medicine and Pathology
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Ram
43k
Why did you add this as an answer to a random post? I'm moving this to a comment. To answer your question, read this post: https://www.bio…
Comment: ERROR: Duplicate entry "..." in sam header; samtools view: failed to add PG lin
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GenoMax
142k
> I don't understand why SAM header has "Duplicate entry" and what should I do in this case. Your reference sequence must have fasta head…
Comment: UMI-Tools knee-method has great influence on the results of white list
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i.sudbery
19k
I can't immediately see anything wrong. The log file should contain lines saying how many reads were parsed, how many reads matched the bar…
Comment: UMI-Tools knee-method has great influence on the results of white list
by
Assa Yeroslaviz
★ 1.8k
Thank you for the explanation. I can see the plots look strange, but i truly don't know why this is. I have a feeling that the sequencing …
Comment: High Malat-1 expression in single cell data
by
dsull
★ 6.0k
No -- those are ribosomal proteins, not rRNAs.
Comment: trying to count a pattern in my fastq file using bbduk
by
GenoMax
142k
Thanks for that link. As noted in that example, you can try `seal.sh` instead of `bbduk.sh`. > Is it possible, that this pattern is just …
Comment: Question regarding WGCNA
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deepak
• 0
These are independent biological replicates
Comment: UMI-Tools knee-method has great influence on the results of white list
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i.sudbery
19k
I didn't mean to sound like I was taking it as a criticism, I genuinely meant that we never intended to be a foolproof whitelisting tool. T…
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