User: Raony Guimarães
Raony Guimarães • 860
- Reputation:
- 860
- Status:
- Trusted
- Location:
- Dublin / Ireland
- Website:
- https://raonyguimaraes...
- Twitter:
- raonyguimaraes
- Scholar ID:
- Google Scholar Page
- Last seen:
- 2 hours ago
- Joined:
- 7 years, 3 months ago
- Email:
- r*************@gmail.com
PhD in Bioinformatics with experience in developing software and methods to the fields of Precision Medicine and Pharmacogenomics.
Currently working for a company called Genomics Medicine Ireland developing Bioinformatics software for doing NGS analysis.
Posts by Raony Guimarães
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0
votes
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answer
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Comment:
C: Why I can not update R?
... Microsft R is just packaged differently than traditional R and it probably adds itself to the $PATH correctly.
You will probably need to reinstall your packages with install.packages but you will get a much better multithread performance. ...
written 5 weeks ago by
Raony Guimarães • 860
1
vote
1
answer
286
views
1
answers
Comment:
A: Why I can not update R?
... I would recommend you try to install Microsoft R:
https://mran.blob.core.windows.net/install/mro/3.5.1/microsoft-r-open-3.5.1.pkg
...
written 5 weeks ago by
Raony Guimarães • 860
3
votes
3
answers
330
views
3
answers
... You could use [PostgreSQL][1] and [JsonB][2] to get the best of both worlds: [relational and non-relational][3] features.
[1]: https://www.postgresql.org/
[2]: https://www.postgresql.org/docs/9.4/static/datatype-json.html
[3]: https://blog.codeship.com/unleash-the-power-of-storing-json-in-po ...
written 8 weeks ago by
Raony Guimarães • 860
2
votes
2
answers
291
views
2
answers
Answer:
A: Clustering large data
... You could use scikit-learn http://scikit-learn.org
http://scikit-learn.org/stable/modules/clustering.html#clustering ...
written 8 months ago by
Raony Guimarães • 860
3
votes
5
answers
613
views
5
answers
... Hi there,
Just want to say I made [mendelmd.org][1] for that.
It's free and open source!
[1]: http://mendelmd.org ...
written 9 months ago by
Raony Guimarães • 860
0
votes
1
answer
656
views
1
answers
Answer:
A: VQSRTranche filters in GATK
... This image explains more about the tranches
 ...
written 10 months ago by
Raony Guimarães • 860
0
votes
3
answers
754
views
3
answers
... You need to provide a bed file with the target regions specific to your exome target kit or you can use a generic with the official list of exome regions from UCSC.
...
written 10 months ago by
Raony Guimarães • 860
0
votes
1
answer
1.1k
views
1
answers
Comment:
C: GATK Unified Genotyper
... Yes, this is only a warning. ...
written 10 months ago by
Raony Guimarães • 860
0
votes
1
answer
1.1k
views
1
answers
Answer:
A: GATK Unified Genotyper
... This is likely happening because you are not giving enough memory to java with the parameter: -Xmx
Try running it again with the following command:
java -Xmx 32g -jar GenomeAnalysisTK.jar -T UnifiedGenotyper -R hg38.fa -I /home/likithreddy/Documents/Cancergenomics/ReadgroupsSRR098401mem_pesort.ba ...
written 10 months ago by
Raony Guimarães • 860
2
votes
2
answers
2.4k
views
2
answers
Answer:
A: Number of Threads for BWA MEM
... Are you looking for something like this ?
Source: http://en.community.dell.com/techcenter/high-performance-computing/b/genomics ...
written 10 months ago by
Raony Guimarães • 860
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