Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
39,750
Status:
Trusted
Location:
Belgium
Website:
https://gigabaseorgiga...
Twitter:
wouter_decoster
Last seen:
an hour ago
Joined:
3 years, 4 months ago
Email:
d*************@gmail.com

I am a research associate at the Center for Molecular Neurology, University of Antwerp & VIB, focussing on 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 • 7,118 results • page 1 of 712 • next >
0
votes
0
answers
53
views
0
answers
Comment: C: Is it possible to detect lncRNA in a de novo assembled genome?
... Your title says that you have a de novo assembled genome, but your question is about a species with (reference) genome, so what is it? ...
written 8 hours ago by WouterDeCoster40k
0
votes
1
answer
130
views
1
answers
Comment: C: Biological replicates and depth seq
... It's not a written rule. It's just etiquette. ...
written 21 hours ago by WouterDeCoster40k
0
votes
1
answer
130
views
1
answers
Comment: C: Biological replicates and depth seq
... Nobody has any obligation at all to keep on answering. ...
written 22 hours ago by WouterDeCoster40k
1
vote
1
answer
85
views
1
answers
Answer: A: comparing kallisto rsem , makind sd plot and corelation table /graph
... A good starting point would be [this workflow][1]. Feel free to open a new question if you have a more specific question afterward. [1]: https://bioconductor.org/packages/devel/bioc/vignettes/tximport/inst/doc/tximport.html ...
written 1 day ago by WouterDeCoster40k
0
votes
0
answers
56
views
0
answers
Comment: C: perseus expert assist
... How can we help you with your workflow if you don't show it? ...
written 1 day ago by WouterDeCoster40k
1
vote
1
answer
66
views
1
answers
Comment: C: How to set up my vcf with a minimum depth?
... For your information, you can avoid intermediate files and save time by piping the output of bwa mem directly to samtools and create a sorted bam file: bwa mem genome.fa reads.fastq.gz | samtools sort -o sorted_alignment.bam This requires that your samtools is quite recent, but you should alwa ...
written 2 days ago by WouterDeCoster40k
1
vote
2
answers
81
views
2
answers
Comment: C: VCF merge or concatenate?
... Not what you are asking for, but the currently recommended tool for things like this is `bcftools`, and no longer VCFtools. ...
written 2 days ago by WouterDeCoster40k
0
votes
0
answers
60
views
0
answers
Comment: C: Empty output of allele specific expression analysis by GATK
... It may be obvious, but you used the same reference for your WGS and RNA-seq, right? Same chromosome names... ...
written 3 days ago by WouterDeCoster40k
2
votes
1
answer
135
views
1
answers
Comment: C: Perl Programming - How to join two columns of a text file, in which values of th
... > I am a beginner with Perl programming. If you are now starting out with programming and can choose which language to learn, Perl is not the best choice. It was amazing for bioinformatics 10 years ago, but nowadays a better choice would be Python or R. ...
written 3 days ago by WouterDeCoster40k
0
votes
1
answer
66
views
1
answers
Comment: C: Host Decontamination: bbTools or Samtools?
... > I have always used Samtools to remove any human contaminants from my gut flora data. Well, samtools has multiple subcommands, and you can do a lot with it. It is probably most helpful if you describe more in detail what you did (which commands you used). ...
written 3 days ago by WouterDeCoster40k

Latest awards to WouterDeCoster

Good Answer 2 days ago, created an answer that was upvoted at least 5 times. For A: samtools sort bam file
Scholar 7 days ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Teacher 12 days ago, created an answer with at least 3 up-votes. For C: Split file not working
Teacher 14 days ago, created an answer with at least 3 up-votes. For C: Split file not working
Teacher 18 days ago, created an answer with at least 3 up-votes. For C: Split file not working
Teacher 19 days ago, created an answer with at least 3 up-votes. For C: Split file not working
Appreciated 21 days ago, created a post with more than 5 votes. For Workflow for structural variants from long read sequencing data
Teacher 23 days ago, created an answer with at least 3 up-votes. For C: Split file not working
Scholar 23 days ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Good Answer 25 days ago, created an answer that was upvoted at least 5 times. For A: splitting a SAM file
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For C: Split file not working
Scholar 4 weeks ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For C: Split file not working
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For C: Split file not working
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For C: Split file not working
Commentator 6 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Appreciated 7 weeks ago, created a post with more than 5 votes. For Interesting bioinformatics blogs (2017 edition)
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: Most common practice for targeted sequencing analysis tools?
Scholar 7 weeks ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: Most common practice for targeted sequencing analysis tools?
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Most common practice for targeted sequencing analysis tools?
Commentator 10 weeks ago, created a comment with at least 3 up-votes. For C: Fastest (non-pseudo) aligner for RNA-seq illumina seq data (year 2019)
Scholar 10 weeks ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Good Answer 10 weeks ago, created an answer that was upvoted at least 5 times. For A: splitting a SAM file

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 705 users visited in the last hour