User: Iñigo Prada

gravatar for Iñigo Prada
Iñigo Prada110
Reputation:
110
Status:
Trusted
Location:
Denmark/University of Copenagen
Last seen:
1 day, 10 hours ago
Joined:
6 months, 2 weeks ago
Email:
p*******@hotmail.es

I am a second year Bioinformatics student and a student assistant/ Bioinformatician at the University of Copenhagen

Posts by Iñigo Prada

<prev • 36 results • page 1 of 4 • next >
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Comment: C: hisat2 lead to highly multimapping rate
... G+C, overrepresented sequences? ...
written 1 day ago by Iñigo Prada110
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Comment: C: hisat2 lead to highly multimapping rate
... read length? does your QC look file? ...
written 2 days ago by Iñigo Prada110
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Comment: C: hisat2 lead to highly multimapping rate
... Which parameters are you using in the mapping? how long are your reads? does the quality control look fine? ...
written 2 days ago by Iñigo Prada110
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Comment: C: Where can I find a Python implementation of Clark's or EM algorithm?
... sure, here you have a link to the files in [gist][1] I am not an expert on the EM- algorithm, but I think that you could modify the script to do what you want. The part of the EM algorithm begins at line 51, with the initial guess. and then it performs the Expectation and maximization steps. [ ...
written 3 days ago by Iñigo Prada110
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Comment: C: Where can I find a Python implementation of Clark's or EM algorithm?
... Done! thank you very much! ...
written 4 days ago by Iñigo Prada110
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Comment: C: Where can I find a Python implementation of Clark's or EM algorithm?
... The identation of the code looks fine, but does anyone know a way to post the whole code? ...
written 4 days ago by Iñigo Prada110
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Answer: A: Where can I find a Python implementation of Clark's or EM algorithm?
... This is the implementation I did when doing a course in my masters, of course, it can be wrong. It is done to estimate genotype frequencies. But I think that it could be helpful for you. If you want, I could provide you the files qualities.txt and bases.txt. They show the error rate and the bas ...
written 4 days ago by Iñigo Prada110
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Comment: C: 4C sequence data analysis workflow
... Hi, there is a package called w4Cseq that performs everything for you http://w4cseq.wglab.org/ ...
written 19 days ago by Iñigo Prada110
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Comment: C: 4C-seq analysis using FourCSeq R package
... FourCseq does not support working without replicates. If you are working without replicates, 4C-ker and w4Cseq softwares could work for you. The authors of w4Cseq have a good tutorial explaining how to use it w4Cseq : http://w4cseq.wglab.org/ ...
written 19 days ago by Iñigo Prada110
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Answer: A: 4C-ker and rat genome
... Hi, the authors of 4C-seq did publish an script to digest a genome. That can be found on their github page https://github.com/rr1859/R.4Cker As long as you digest the Rn6 genome with your primary restriction enzyme and do downstream analysis consequently, it will support that. ...
written 19 days ago by Iñigo Prada110

Latest awards to Iñigo Prada

Supporter 29 days ago, voted at least 25 times.
Scholar 11 weeks ago, created an answer that has been accepted. For A: Tophat vs Tophat-fusion concordant alignment rate
Autobiographer 11 weeks ago, has more than 80 characters in the information field of the user's profile.

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