Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
44,750
Status:
Trusted
Location:
Belgium
Website:
https://gigabaseorgiga...
Twitter:
wouter_decoster
Last seen:
9 hours ago
Joined:
4 years, 10 months ago
Email:
d*************@gmail.com

I am a postdoctoral researcher and research associate at the Center for Molecular Neurology, University of Antwerp & VIB, focussing on the analysis of sequencing data with the aim of identifying variants relevant to neurodegenerative diseases, and mainly structural variants using long read PromethION sequencing.

Posts by WouterDeCoster

<prev • 7,594 results • page 1 of 760 • next >
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Comment: C: WGCNA: very low genes assigned to the grey Module
... And what's the question exactly? ...
written 17 hours ago by WouterDeCoster45k
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Answer: A: Where to start? Newbie trying to enter the world of computational biology gettin
... The good news is that likely no or only minimal programming will be necessary (I guess good because you have to learn all this in such a short time, but programming remains a valuable skill) For your specific question, I think [genefriends][1] would be a good place to start, but the site appears do ...
written 5 days ago by WouterDeCoster45k
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Comment: C: Papers/posts on best practises for dealing with Illumina reads?
... I think this is close to what you are looking for? https://academic.oup.com/bioinformatics/article/32/7/961/2240308 ...
written 5 days ago by WouterDeCoster45k
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Comment: C: Adding read group (@RG) information when there are multiple ID's.
... This seems sufficiently distinct from the original question for you to open a new post. ...
written 5 days ago by WouterDeCoster45k
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Comment: C: Which adapters to use for trimming?
... Neither have the Illumina adapters. ...
written 9 days ago by WouterDeCoster45k
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Comment: C: Can you tell whether the cell was dead or not using RNA-seq data?
... Given that there are multiple things a cell can die from it is probably not so straightforward as you would have hoped. ...
written 12 days ago by WouterDeCoster45k
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Comment: C: How to check size of genome?
... > I want to know how to check number of base pairs in bam file That's not the same as the size of the genome though. What exactly do you want? ...
written 13 days ago by WouterDeCoster45k
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Comment: C: How to get independent loci from gwas variants
... It should not be hard to convert that to a valid bed format. It is also always helpful to show an example of the data you have. ...
written 13 days ago by WouterDeCoster45k
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Comment: C: How to get independent loci from gwas variants
... Then you probably want to combine variants which are close to each other? Have a look at [bedtools merge][1] with -d for a certain distance which you consider 'sufficiently close'. [1]: https://bedtools.readthedocs.io/en/latest/content/tools/merge.html ...
written 13 days ago by WouterDeCoster45k
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Comment: C: How to get independent loci from gwas variants
... > find independent loci/regions What does that mean? ...
written 13 days ago by WouterDeCoster45k

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