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Recent Replies
Comment: bcftools stats: definition of indel type
by
Pierre Lindenbaum
145k
if the type hasn't been already defined, the type is set as an array of bytes using `OR` and this function: https://github.com/samtools/hts…
Comment: arrange samples in same order in rows and column in R
by
Kevin Blighe
81k
You probably just need:
fit <- lmFit(t(mval), var)
In your model, you are also attempting to adjust for a lot of covariates- is that…
Comment: arrange samples in same order in rows and column in R
by
Bioinfonext
▴
380
Thank Basti, I already did this, could you please above posted full code?
Many thanks,
Comment: Split fastq files
by
GenoMax
115k
> not sure what does the 001 at the end stand for
That is a standard part of all illumina files. Ages ago data used to be put in 2M read c…
Comment: arrange samples in same order in rows and column in R
by
Bioinfonext
▴
380
Thank you so much for quick response, but here is the more complete code and I already put CpG as row name and in sampleInfo file (targets2…
Comment: Which data files are required to find GWAS summary statistics?
by
4galaxy77
★
1.7k
Yes, you need all 3 files. Look up 'GWAS in plink' and there is lots of tutorials and help.
Answer: arrange samples in same order in rows and column in R
by
Basti
▴
330
The issue comes from the presence of your cg....... column so you might put it into rownames to keep the information and then remove the co…
Comment: arrange samples in same order in rows and column in R
by
Kevin Blighe
81k
What is contained in the `var` variable?
First, the probe names (first column of betaval2) should be set as rownames, and then you need to…
Comment: Split fastq files
by
zeina-younes
•
0
I am sorry i am not a bioinformatician and i am not very familiar with the technical terms that's why my question is not clear.
The sample …
Comment: Strange Trimmomatic behavior
by
lieven.sterck
13k
how did you derive this?
but indeed, that would make perfect sense and explain the issue here (TAA is likely the remainder of the restrict…
Comment: PC build for Nanopore data analysis
by
Jean-Karim Heriche
25k
> An NVIDIA GPU is necessary
only if software can take advantage of it. Not every tool out there is GPU-capable.
Comment: Which data files are required to find GWAS summary statistics?
by
Raju
•
0
Do you mean I have to use 3 files or what? can you please elaborate the procedure
Answer: Recent alternative to LalnView
by
maxime.policarpo
▴
170
Thank for your answers. After checking your propositions, I don't think there are very good alternatives, as annotations must come from gen…
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