Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
41,710
Status:
Trusted
Location:
Belgium
Website:
https://gigabaseorgiga...
Twitter:
wouter_decoster
Last seen:
36 minutes ago
Joined:
3 years, 8 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 • 7,350 results • page 1 of 735 • next >
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Comment: C: RPKM with bowtie output
... > The script is throwing errors. How do you expect us to help if you don't tell us what's going wrong? ...
written 6 hours ago by WouterDeCoster42k
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Comment: C: Minimap2 giving 2 TB sam file as an output
... Why do you tag this as "assembly" while you are aligning? Why do you think this is a "software error"? Wouldn't "minimap2" be the best tag here? ...
written 6 hours ago by WouterDeCoster42k
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Comment: C: Minimap2 giving 2 TB sam file as an output
... You could consider avoiding creating a sam intermediate: minimap2 -a -t 20 reference.mmi query.fasta | samtools sort -o output.bam ...
written 7 hours ago by WouterDeCoster42k
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Comment: C: Whole genome sequencing or whole exome sequencing- which is better and why?
... > Where does Targeted Panel sequencing come in terms of library preparation in sequencing What does that question mean? ...
written 8 hours ago by WouterDeCoster42k
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Answer: A: How to extract a particular region from a nucleotide contig?
... use [samtools faidx][1] to index and retrieve those coordinates [1]: http://www.htslib.org/doc/samtools.html ...
written 8 hours ago by WouterDeCoster42k
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Comment: C: Whole genome sequencing or whole exome sequencing- which is better and why?
... Oh yes, if you already know what you are looking for then a targeted panel is fine. ...
written 8 hours ago by WouterDeCoster42k
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Comment: C: Whole genome sequencing or whole exome sequencing- which is better and why?
... You are confused. You claim WES/panel is better than WGS here, while the difference is just the sequencing depth. If you do ultra-deep WGS you would find the same (and much more!). It's not a matter of technology, but of depth. ...
written 9 hours ago by WouterDeCoster42k
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Comment: C: MUMmer . Global alignment
... > i was trying to do Global alignment using nucmer package Please be more specific about what you are doing and why, what your data is and what you aim to achieve. > but i didn't undrestand results Please be more specific about the results you got and how that was unclear. > can anyone ...
written 9 hours ago by WouterDeCoster42k
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Answer: A: Whole genome sequencing or whole exome sequencing- which is better and why?
... > if genomic DNA is extracted from tissues, and the goal is to find variants such as SNP, indels, CNVs-which is the preferred method- whole exome sequencing or whole genome sequencing and why? SNPs and short indels can be called both using WES and WGS. However, you can only call variants if they ...
written 10 hours ago by WouterDeCoster42k
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Comment: C: Deferentially Expressed Genes Heatmap
... > I tried few packages in R but no luck Please show us what you have tried ...
written 22 hours ago by WouterDeCoster42k

Latest awards to WouterDeCoster

Teacher 9 hours ago, created an answer with at least 3 up-votes. For A: Merging multiple vcfs with GATK's CombineVariants
Scholar 9 hours ago, created an answer that has been accepted. For A: hg19 exon, intron, UTR region
Appreciated 10 days ago, created a post with more than 5 votes. For A: Merging multiple vcfs with GATK's CombineVariants
Good Answer 11 days ago, created an answer that was upvoted at least 5 times. For A: Merging multiple vcfs with GATK's CombineVariants
Scholar 12 days ago, created an answer that has been accepted. For A: hg19 exon, intron, UTR region
Teacher 13 days ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Good Answer 19 days ago, created an answer that was upvoted at least 5 times. For A: samtools sort bam file
Appreciated 19 days ago, created a post with more than 5 votes. For A: How to use htseq-count with several samples ?
Teacher 19 days ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Teacher 19 days ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Commentator 5 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Scholar 6 weeks ago, created an answer that has been accepted. For A: hg19 exon, intron, UTR region
Scholar 7 weeks ago, created an answer that has been accepted. For A: hg19 exon, intron, UTR region
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Scholar 8 weeks ago, created an answer that has been accepted. For A: featureCount Too Many Genes
Commentator 8 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Scholar 8 weeks ago, created an answer that has been accepted. For A: featureCount Too Many Genes
Commentator 8 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 8 weeks ago, created a comment with at least 3 up-votes. For C: is fortran still used in bioinformatics?
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For C: Doing differential gene expression without knowing sample classes
Scholar 8 weeks ago, created an answer that has been accepted. For A: featureCount Too Many Genes
Commentator 8 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 C: Doing differential gene expression without knowing sample classes

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