User: WouterDeCoster

Reputation:
90
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Trusted
Location:
Antwerp, Belgium
Twitter:
wouter_decoster
Last seen:
10 hours ago
Joined:
1 year, 2 months ago
Email:
d*************@gmail.com

I'm a PhD student with strong interest in bio-informatics, but followed master in biochemistry prior to starting my PhD. I mainly work on data from genome sequencing, whole exome sequencing, targeted resequencing, RNA-seq and Nanopore Sequencing using MinION and (soon!) PromethION. I have most experience with Python but starting to get rather efficient in R.

Posts by WouterDeCoster

<prev • 25 results • page 1 of 3 • next >
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Comment: C: R: error while reading .h5 files from R using rdhf5 package
... Is the file in your current directory? ...
written 8 weeks ago by WouterDeCoster90
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Comment: C: installing package from bioconductor
... My first guess would be that the space in the path is the problem. ...
written 11 weeks ago by WouterDeCoster90
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Comment: C: Problem with readFast5Summary in IONiseR related to HDF5
... I notice you have a space in the path to your data, which is generally not a good idea. It might be unrelated to this issue (but I would suggest you to test it anyway). ...
written 4 months ago by WouterDeCoster90
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Comment: C: Error in Heatmap...
... My first guess would be to try without spaces in the filename. That's usually something you want to avoid. ...
written 5 months ago by WouterDeCoster90
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Comment: C: Error in valcano plot
... It's probably helpful to show the code you used for the volcano plot and for adding labels to the volcano, too. ...
written 5 months ago by WouterDeCoster90
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Comment: C: IONiseR error when trying to call readFast5Summary on fast5 reads
... Is your data recent? There has been an update of the format. ...
written 5 months ago by WouterDeCoster90
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Answer: A: featureCounts creating fragments and high NoFeatures value
... Based on my understanding: STAR is reporting percentages on the number of reads received as input of STAR (so in the fastq files). In contrast, featureCounts is reporting percentages on the number of alignments, which is, due to multimapping, higher than the number of reads. For STAR one fastq is ...
written 6 months ago by WouterDeCoster90
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Comment: C: installation of "airway" had non-zero exit status
... Could you add your sessionInfo()? Especially the version of Bioconductor and R are relevant. ...
written 6 months ago by WouterDeCoster90
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Comment: C: Annotate VCFs with Cosmic (ExAC etc.) fields
... Avoid re-inventing the wheel, the tools doing what you want already exist. As suggested by Julian, bcftools annotate is one of those. ...
written 9 months ago by WouterDeCoster90
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Answer: A: Unable to load edgeR with bioconductor
... It's a warning, not necessarily an error. Doesn't it give you the opportunity to use a personal library instead?  Either way, R has no permission to write in "C:/Program Files/R/R-3.3.1/library", perhaps you can start R as administrator on your computer? ...
written 9 months ago by WouterDeCoster90

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Autobiographer 14 months ago, has more than 80 characters in the information field of the user's profile.

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