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ricfoz
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Dunois
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Recent Replies
Comment: How to add gene information below the BSmooth result ?
by
Matthias Zepper
3.4k
Sadly, I can't help you with your specific problem with this package specifically. But I used [Gviz][1] in R for [a similar figure in my th…
Answer: Circos plot using vcf : Mutect2 MultiSample VCF out file
by
Pierre Lindenbaum
153k
If you want to create one track per sample, the idea is to loop over the samples and to create a file for each samples. Something like (not…
Comment: NA14622 data for benchmarking
by
GenoMax
126k
NA14622 is not part of GiAB as far as I see. So you are likely not going to find files of reference quality like GiAB.
Comment: How to perform synteny alignments and plots only with a gene?
by
Rafael Soler
★
1.1k
Thanks for the info! So valuable!
Answer: advice on course selection for a bioinformatics career.
by
Istvan Albert
96k
In my opinion, primarily math-oriented classes like Linear Algebra would not be all that useful in a bioinformatics/programmer career.
In …
Comment: advice on course selection for a bioinformatics career.
by
benformatics
3.5k
i would go with the Math/Stats over the Bio. just the principles of genetics should be sufficient to work in the field... you can pick up b…
Comment: how to get pfam id of proteins belonging to a particular family along with seque
by
max
•
0
Thanks .Is there any way to get pfam ids along with the protein family names?
Comment: Circos plot using vcf : Mutect2 MultiSample VCF out file
by
m. bioinfo
•
0
Thanks for reply!
My expectations are to create such a figure using my multisample vcf file which is a MuTect2 output.
First choice of ima…
Comment: Trying to install Roary with Conda results in error message
by
ATpoint
70k
+1 Great answer!
Comment: Nextflow memory issues custom config -c
by
ATpoint
70k
Be sure though that you have evidence that the tools in the pipeline still run eith these params. While not 100% accurate, usually the defa…
Comment: Plot in R: Presence of bacteria type A vs bacteria type B in different groups
by
Basti
★
1.4k
There are plenty of examples using ggplot2 barplots on the internet : http://www.sthda.com/english/wiki/ggplot2-barplots-quick-start-guide-…
Answer: Fastqc lsequence duplication and per base sequence content failed
by
GenoMax
126k
Yes you are good to proceed. If you notice any issues later in the analysis you can backtrack to check on these.
Please see following info…
Comment: wrong quality plots in fastqc output
by
poecile.pal
▴
50
Thank you so much for such a quick response!
Everything is clear with plots now.
As for duplication, it's a pity, I was hoping that it wa…
Comment: Trying to install Roary with Conda results in error message
by
Dunois
★
2.3k
You are welcome.
And yes, based on my own limited experience, I would always recommend that these various bioinformatics tools be installe…
Comment: prefix extraction and preparation for mapping and variant calling
by
Human
•
0
Or what do you think about this:
#!/bin/bash
(...)
#SBATCH --array=1-262
# Load required modules
module lo…
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