User: Gabriel R.

gravatar for Gabriel R.
Gabriel R.2.8k
Reputation:
2,750
Status:
Trusted
Location:
Danmarks Tekniske Universitet
Website:
https://grenaud.github...
Twitter:
gabrielylr
Scholar ID:
Google Scholar Page
Last seen:
5 hours ago
Joined:
8 years, 6 months ago
Email:
m***************@yahoo.com

I am assistant professor at the Technical University of Denmark. In a former life, I was postdoc at the Center for Geogenetics at Copenhagen University and before, a Ph.D student in bioinformatics at the Max Planck Institute for Evolutionary Anthropology/ Interested in sequencing, particularly ancient DNA and inference of demography. 

Posts by Gabriel R.

<prev • 389 results • page 1 of 39 • next >
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Comment: C: How to find the GC content by Interval
... not in R but in C++: https://github.com/shahcompbio/hmmcopy_utils I guess you could automate calls in R? ...
written 10 days ago by Gabriel R.2.8k
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Comment: C: Demultiplexing Illumina data
... could you post the offending line? Put 4 whitespaces before the line to keep the format. ...
written 22 days ago by Gabriel R.2.8k
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Comment: C: SamReadViewer - A small utility to visualise read alignment directly from sam fo
... I have coded a subroutine to rebuild the ref. from the CIGAR+MD using htslib, never again! I reuse that code over and over. I would have loved your tool when I was developing my code, it would have saved me a lot of time. I am sure a programmer will enjoy it in the future ;-) ...
written 24 days ago by Gabriel R.2.8k
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Comment: C: SamReadViewer - A small utility to visualise read alignment directly from sam fo
... very useful little tool btw! ...
written 24 days ago by Gabriel R.2.8k
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Comment: C: SamReadViewer - A small utility to visualise read alignment directly from sam fo
... ah great! I only read your biostars post :-) ...
written 27 days ago by Gabriel R.2.8k
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Comment: C: SamReadViewer - A small utility to visualise read alignment directly from sam fo
... nice! maybe point out that you need the MD field to be correct. doesn't it? ...
written 27 days ago by Gabriel R.2.8k
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Comment: C: filter illumina index
... Just so I can understand, could you post examples of sequences you have and a list of expected indices? ...
written 6 weeks ago by Gabriel R.2.8k
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Comment: C: Demultiplexing based on dual indices in headers while allowing 1 mismatch to eac
... I copied your file as "biostars.fq.gz" First extract your first indices: zcat biostars.fq.gz |awk '{if( (NR%4)==1){ print $0; print substr($2,length($2)-16,8); print "+"; print "FFFFFFFF"} }' |gzip > index1.fq.gz Second extract the second: zcat biostars.fq.gz |awk '{if( (NR%4)==1){ ...
written 4 months ago by Gabriel R.2.8k • updated 4 months ago by genomax91k
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Comment: C: Demultiplexing based on dual indices in headers while allowing 1 mismatch to eac
... Normally, you should put them as a separate file. However, you can transform your indices in the header into separate files easily using UNIX commands. If you need a hand, paste a few sequences with the headers and I can have a look. ...
written 4 months ago by Gabriel R.2.8k
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Comment: C: Demultiplexing based on dual indices in headers while allowing 1 mismatch to eac
... let me know if you need help! ...
written 4 months ago by Gabriel R.2.8k

Latest awards to Gabriel R.

Good Answer 4 months ago, created an answer that was upvoted at least 5 times. For A: What Skills Do You Have To Have As A Phd Graduate In Bioinformatics?
Scholar 4 months ago, created an answer that has been accepted. For A: Evolutionary distance models
Scholar 5 months ago, created an answer that has been accepted. For A: Evolutionary distance models
Scholar 7 months ago, created an answer that has been accepted. For A: Evolutionary distance models
Appreciated 12 months ago, created a post with more than 5 votes. For C: gender SNP marker
Popular Question 18 months ago, created a question with more than 1,000 views. For Merge Scaffolds From Different Individuals?
Scholar 19 months ago, created an answer that has been accepted. For A: Evolutionary distance models
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: How To Interpret The Kmer Enrichment Plot Of A Fastqc Output
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: How To Interpret The Kmer Enrichment Plot Of A Fastqc Output
Good Answer 23 months ago, created an answer that was upvoted at least 5 times. For A: What Skills Do You Have To Have As A Phd Graduate In Bioinformatics?
Popular Question 23 months ago, created a question with more than 1,000 views. For Psmc Parameters To Use
Teacher 2.0 years ago, created an answer with at least 3 up-votes. For A: How To Interpret The Kmer Enrichment Plot Of A Fastqc Output
Teacher 2.0 years ago, created an answer with at least 3 up-votes. For A: How To Interpret The Kmer Enrichment Plot Of A Fastqc Output
Great Question 2.1 years ago, created a question with more than 5,000 views. For Out Of Disk Space With Picard Tools ?
Scholar 2.2 years ago, created an answer that has been accepted. For A: Evolutionary distance models
Scholar 2.5 years ago, created an answer that has been accepted. For A: Evolutionary distance models
Appreciated 2.6 years ago, created a post with more than 5 votes. For C: gender SNP marker
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Raxml (Residues Read In Sequence)
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Create A Consensus Of Very Short Sequences
Teacher 2.7 years ago, created an answer with at least 3 up-votes. For A: How To Interpret The Kmer Enrichment Plot Of A Fastqc Output
Scholar 3.0 years ago, created an answer that has been accepted. For A: Evolutionary distance models
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: How To Interpret The Kmer Enrichment Plot Of A Fastqc Output
Appreciated 3.0 years ago, created a post with more than 5 votes. For C: gender SNP marker
Scholar 3.1 years ago, created an answer that has been accepted. For A: Evolutionary distance models

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