Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
11,430
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Location:
Belgium
Twitter:
wouter_decoster
Last seen:
a minute ago
Joined:
10 months, 1 week ago
Email:
d*************@gmail.com

I'm a PhD student at the University of Antwerp (VIB department of Molecular Genetics) 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.

Posts by WouterDeCoster

<prev • 2,395 results • page 1 of 240 • next >
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Comment: C: Nextera Transposon Contamination
... It's not sequenced if your inserts aren't shorter than the read length. Essentially, you only sequence it if you read through the insert in the other adapter. Which matches the observations here: the adapter is reached at the ends of the reads. What the text you copied means it that it isn't sequen ...
written 7 hours ago by WouterDeCoster11k
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Comment: C: Error when runing dotplot with enrichGO results
... or `class(ego)`. My money is on an unexpected factor. ...
written 8 hours ago by WouterDeCoster11k
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Comment: C: How to count occurrence of numbers in text files using phython
... You are not getting faster or more accurate help by using incorrect tags, so doesn't have added value to add in excel when this is not a question related to excel (regardless of where your input data is from). ...
written 8 hours ago by WouterDeCoster11k
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Comment: C: How to count occurrence of numbers in text files using phython
... It's a bit unclear what you are asking for, but I think the `break` statement before Output_file01.write() is not your best friend. That will just break the loop there. Also, you are looking at templist[0], which is (if I'm not mistaken) just your amino acid number and not actually the 0 or 1 at th ...
written 8 hours ago by WouterDeCoster11k
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Comment: C: problem with PeakAnalyzer
... Hello Brice222! It appears that your post has been cross-posted to another site: http://seqanswers.com/forums/showthread.php?p=203294 This is typically not recommended as it runs the risk of annoying people in both communities. ...
written 8 hours ago by WouterDeCoster11k
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Comment: C: Merge fastq files from different lanes
... So you mean listing all fastq files per read direction (comma separated) as input to Tophat? That would also be possible, and I assume equivalent to the other options. I see you suggested that in your initial post, although I'm unsure what you mean with "like technical replicates" (because in this c ...
written 18 hours ago by WouterDeCoster11k
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Answer: A: Merge fastq files from different lines
... I assume you mean two different lanes on the sequencer rather than lines. You can either merge the fastq files or merge the bam files, which should lead to the same final outcome. Using those separately as technical replicate probably has probably limited added value. Note: Tophat-Cufflinks is no ...
written 19 hours ago by WouterDeCoster11k
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Comment: C: Download all refseq/genbank bacterial genomes from NCBI
... I had a look at your code and it sure looks decent. I tried your example usage from Github and it did the job here. If you would rewrite `print "something"` to `print("something")` your code would also be compatible with python3. ...
written 22 hours ago by WouterDeCoster11k
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Comment: C: Download all refseq/genbank bacterial genomes from NCBI
... Oh yeah you are right, guess I'm getting used to adjusting post classification but should've read more carefully here. ...
written 23 hours ago by WouterDeCoster11k
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Comment: C: heatmap resolution issue
... The parameters suggest by Jean-Karim will be those you need. Probably increasing cellheight, possibly also reducing fontsize_rows a bit. ...
written 23 hours ago by WouterDeCoster11k

Latest awards to WouterDeCoster

Commentator 4 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 5 days ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Scholar 5 days ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Teacher 10 days ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Scholar 15 days ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Teacher 15 days ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Teacher 20 days ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Commentator 21 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Commentator 4 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Scholar 4 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Commentator 4 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Cylon 4 weeks ago, received 1,000 up votes.
Commentator 4 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Scholar 4 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Scholar 5 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Commentator 5 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Scholar 6 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Commentator 7 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Scholar 7 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Scholar 7 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: What does + stand for in sequence alignment (blastp)?
Scholar 7 weeks ago, created an answer that has been accepted. For A: how can I obtain benign / neutral snps?

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