Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
31,780
Status:
Trusted
Location:
Belgium
Website:
https://gigabaseorgiga...
Twitter:
wouter_decoster
Last seen:
4 hours ago
Joined:
2 years, 6 months ago
Email:
d*************@gmail.com

I'm a PhD student at the University of Antwerp (VIB Center for Molecular Neurology) with a background in biochemistry. I mainly work on data generated by genome sequencing, exome sequencing, targeted resequencing, RNA-seq and Nanopore Sequencing using MinION and PromethION.

Posts by WouterDeCoster

<prev • 6,037 results • page 1 of 604 • next >
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Comment: C: Problems running VC GATK: SAM/BAM/CRAM file dedup.bam is malformed
... PAA* because they make it harder to read your post. In this case, it's probably "variant calling" what you are talking about. While VC may be a CUA** for you, this is not not necessarily the case for the rest of the users here. \* Please Avoid Abbreviations ** Commonly Used Abbreviation ...
written 4 hours ago by WouterDeCoster32k
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Comment: C: snpEff: wrong HGVS output?
... Hi Marvin, There is no need to delete your question, especially when people have provided helpful reactions. Cheers, Wouter ...
written 4 hours ago by WouterDeCoster32k
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Comment: C: Read Name in IGV and duplicates
... https://www.biostars.org/p/309884/ ...
written 22 hours ago by WouterDeCoster32k
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Comment: C: Orthomcl clusters to fasta
... There is no need to SHOUT. I have removed the uppercase characters from your title. ...
written 22 hours ago by WouterDeCoster32k
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Comment: C: Identifying de novo variants in a WGS Trio.vcf file
... Essentially, you want to filter out lines in which the number of alternative alleles is higher in the child than the sum of the alternative alleles in the parents. But I'd say that a scenario where you have 1/0 and 0/0 parents and a 1/1 child is extremely unlikely. Also, you are probably looking fo ...
written 22 hours ago by WouterDeCoster32k
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Comment: C: Identifying de novo variants in a WGS Trio.vcf file
... > To my knowledge, de novo variants cannot be phased by the tool because they are not transmitted from the parents. True, but you could just filter for variants which are found in the child and not in the parents. Phasing might work to filter a bit, but why would you? > Because there is alm ...
written 1 day ago by WouterDeCoster32k
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Comment: C: EMBOSS transeq translate to protein with 3 letter code
... I have moved the comment of cpad0112 to an answer so it can be accepted. ...
written 1 day ago by WouterDeCoster32k
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Answer: A: Human Promethion data available?
... We have sequenced NA19240, the data is available on ENA, and accession identifiers can be found in this blog post: https://gigabaseorgigabyte.wordpress.com/2018/05/24/promethion-human-genome-na19240/ ...
written 1 day ago by WouterDeCoster32k
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Comment: C: EMBOSS transeq translate to protein with 3 letter code
... It wouldn't be too hard to write a script which converts between one and three letter codes. There must be ample python examples to get you started. ...
written 2 days ago by WouterDeCoster32k
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Comment: C: Metagenomics - mothur
... I don't know how you are trying to open the file now, and I don't know your operating system. But if you are on a linux system you can open the image using `eog`. eog myimage.svg ...
written 2 days ago by WouterDeCoster32k

Latest awards to WouterDeCoster

Commentator 9 hours ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 21 hours ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 6 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 7 days ago, created an answer with at least 3 up-votes. For A: add header with awk
Scholar 7 days ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Teacher 7 days ago, created an answer with at least 3 up-votes. For A: add header with awk
Scholar 7 days ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Teacher 8 days ago, created an answer with at least 3 up-votes. For A: add header with awk
Scholar 8 days ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Scholar 9 days ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Teacher 10 days ago, created an answer with at least 3 up-votes. For A: add header with awk
Commentator 11 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 12 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 16 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 17 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Scholar 17 days ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Teacher 18 days ago, created an answer with at least 3 up-votes. For A: add header with awk
Teacher 22 days ago, created an answer with at least 3 up-votes. For A: add header with awk
Scholar 22 days ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Commentator 22 days ago, created a comment with at least 3 up-votes. For C: GTF format that's acceptable for Tophat/Cufflinks
Commentator 22 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 28 days ago, created a comment with at least 3 up-votes. For C: Plot number of mutations in each cancer type in VCF files?
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: add header with awk
Scholar 4 weeks ago, created an answer that has been accepted. For A: Merge vcf files of structural variants
Appreciated 5 weeks ago, created a post with more than 5 votes. For Interesting bioinformatics blogs (2017 edition)

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