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Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
44,080
Status:
Trusted
Location:
Belgium
Website:
https://gigabaseorgiga...
Twitter:
wouter_decoster
Last seen:
5 days, 4 hours ago
Joined:
4 years, 6 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 • 7,541 results • page 1 of 755 • next >
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Answer: C: Treat methylation as binary or continuous signal when detecting DMR?
... FYI, your question is somewhat related to a question which I answered on Bioinformatics StackExchange https://bioinformatics.stackexchange.com/questions/14084/how-to-understand-methylation-level/14088#14088 ...
written 13 days ago by WouterDeCoster ♦ 44k
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Comment: C: Genotyping samples at a predetermined list of locations
... Not sure if that fully solves your question, but Freebayes can take a VCF as input for force-calling of those positions. ...
written 5 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: what is the mean of the file "*._f1.fq.gz" and "*._r2.fa.gz"
... Doesn't work on all operating systems though. ...
written 6 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: Database for germline mutations
... Somatic variants are present in all tissues, all the time, also without giving rise to a tumor. However, their frequency would always be pretty low. Except in the case that very early in the development (blastula stage or something like that) a mutation happened. But there is no way to distinguish t ...
written 6 weeks ago by WouterDeCoster ♦ 44k • updated 6 weeks ago by RamRS ♦ 30k
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Comment: C: I am trying to select some reference genome region of a bam file, but got an err
... What's the output of `samtools idxstats sorted_SRR1972739.bwa.bam`? By the way, your command could be a lot shorter, avoiding unnecessary intermediate files. This assumes you are using a fairly recent version of samtools, but you should make sure to work with up-to-date tools anyway. You can repla ...
written 6 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: scRNAseq - DE
... > I have fold-change values for all samples Against what were those values compared to get fold changes? ...
written 6 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: BGI sequencer and his output
... You'll get fastq format. ...
written 6 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: Immacantation_tigger library function inferGenotype gives following error Error
... Bugs are probably more appropriate here: https://bitbucket.org/kleinstein/tigger/issues ...
written 6 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: Why the sequences are completely different with the same position in 1000 genome
... It's in the CIGAR string. 13S, 40S and 22S. ...
written 6 weeks ago by WouterDeCoster ♦ 44k
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Comment: C: Immacantation_tigger library function inferGenotype gives following error Error
... Hello B- for bioinformatics ! Tihs post is impossible to answer given the current formatting and information For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. If you disagree please tell us why in a reply below, ...
written 6 weeks ago by WouterDeCoster ♦ 44k

Latest awards to WouterDeCoster

Teacher 19 days ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Teacher 23 days ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Teacher 28 days ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Appreciated 10 weeks ago, created a post with more than 5 votes. For methplotlib: visualization and analysis of modified nucleotides from nanopore sequencing
Commentator 10 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Popular Question 10 weeks ago, created a question with more than 1,000 views. For DEA.R: Command line script for differential expression analysis with R packages (DESeq2/edgeR/limma-voom)
Scholar 10 weeks ago, created an answer that has been accepted. For A: samtools sort bam file
Scholar 11 weeks ago, created an answer that has been accepted. For A: samtools sort bam file
Scholar 11 weeks ago, created an answer that has been accepted. For A: samtools sort bam file
Appreciated 11 weeks ago, created a post with more than 5 votes. For methplotlib: visualization and analysis of modified nucleotides from nanopore sequencing
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: samtools sort bam file
Popular Question 3 months ago, created a question with more than 1,000 views. For DEA.R: Command line script for differential expression analysis with R packages (DESeq2/edgeR/limma-voom)
Scholar 3 months ago, created an answer that has been accepted. For A: how to combine RNA seq data from 4 lanes
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Merging multiple vcfs with GATK's CombineVariants
Scholar 4 months ago, created an answer that has been accepted. For A: hg19 exon, intron, UTR region
Commentator 4 months ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Merging multiple vcfs with GATK's CombineVariants
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Merging multiple vcfs with GATK's CombineVariants
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
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