User: Raony Guimarães

Reputation:
820
Status:
Trusted
Location:
Dublin / Ireland
Website:
https://raonyguimaraes...
Twitter:
raonyguimaraes
Scholar ID:
Google Scholar Page
Last seen:
12 hours ago
Joined:
6 years, 10 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

<prev • 66 results • page 1 of 7 • next >
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Answer: A: Clustering large data
... You could use scikit-learn http://scikit-learn.org http://scikit-learn.org/stable/modules/clustering.html#clustering ...
written 3 months ago by Raony Guimarães820
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Answer: A: opensource grafical user interface for filtering millions of annotated variant
... Hi there, Just want to say I made [mendelmd.org][1] for that. It's free and open source! [1]: http://mendelmd.org ...
written 4 months ago by Raony Guimarães820
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Answer: A: VQSRTranche filters in GATK
... This image explains more about the tranches ![](https://us.v-cdn.net/5019796/uploads/FileUpload/b6/ef1c4b5fe263e3a24fea6848776cd8.jpeg) ...
written 5 months ago by Raony Guimarães820
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Answer: A: Do I need to provide the Illumina's target region bed file for qualimap?
... 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 5 months ago by Raony Guimarães820
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Comment: C: GATK Unified Genotyper
... Yes, this is only a warning. ...
written 5 months ago by Raony Guimarães820
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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 5 months ago by Raony Guimarães820
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Answer: A: Number of Threads for BWA MEM
... Are you looking for something like this ? ![alt text](http://en.community.dell.com/cfs-file/__key/communityserver-blogs-components-weblogfiles/00-00-00-45-24/1447.bwa_2D00_scaling.png "Logo Title Text 1") Source: http://en.community.dell.com/techcenter/high-performance-computing/b/genomics ...
written 5 months ago by Raony Guimarães820
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Comment: C: Is it possible to do enrichment analysis for selected genes just with GO number
... Are you looking for Blast2GO ? "Blast2GO offers the possibility of direct statistical analysis on gene function information. A common analysis is the statistical assessment of GO term enrichment in a group of interesting genes when compared to a reference group i.e. to asses the functional differen ...
written 5 months ago by Raony Guimarães820
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Answer: A: SNP single end read
... Yes it's possible. Take a look at: DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as well as insertions and deletions, from raw set(s) of reads. https://github.com/GATB/DiscoSnp Reference-free SNP detection: dealing with the data deluge https://www.ncbi.nlm.nih. ...
written 5 months ago by Raony Guimarães820
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Comment: C: What is the expected rate of SNPs within a human exome sequencing with HiSeq?
... That depends on multiple factors such as sample origin, exome kit, parameters used for alignment and variant calling. Usually after filtering and annotating the final VCF with Snpeff or VEP and restricting your variant list only to the exon regions you should get between 20-40k variants. ...
written 5 months ago by Raony Guimarães820

Latest awards to Raony Guimarães

Scholar 3 months ago, created an answer that has been accepted. For A: genome browser with genomic coordinate
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: How To Map The Fastq With Paired-End Seq Combined In One File
Popular Question 6 months ago, created a question with more than 1,000 views. For 1000 Genomes Yri Trio, Ncbi36/37 And Rs334
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: How To Map The Fastq With Paired-End Seq Combined In One File
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: How To Map The Fastq With Paired-End Seq Combined In One File
Great Question 12 months ago, created a question with more than 5,000 views. For Is It Nonsense To Have Sift/Polyphen2 Scores For Nonsense Variants ?
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: How To Map The Fastq With Paired-End Seq Combined In One File
Scholar 24 months ago, created an answer that has been accepted. For A: genome browser with genomic coordinate
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: How To Map The Fastq With Paired-End Seq Combined In One File
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Exome 101
Popular Question 2.6 years ago, created a question with more than 1,000 views. For 1000 Genomes Yri Trio, Ncbi36/37 And Rs334
Scholar 3.0 years ago, created an answer that has been accepted. For A: genome browser with genomic coordinate
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Is It Nonsense To Have Sift/Polyphen2 Scores For Nonsense Variants ?
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Is It Nonsense To Have Sift/Polyphen2 Scores For Nonsense Variants ?
Supporter 4.2 years ago, voted at least 25 times.
Autobiographer 4.2 years ago, has more than 80 characters in the information field of the user's profile.
Teacher 5.0 years ago, created an answer with at least 3 up-votes. For A: How Important Is It To Gather New Controls For Whole Genome And Exome Variant St
Teacher 5.4 years ago, created an answer with at least 3 up-votes. For A: How To Map The Fastq With Paired-End Seq Combined In One File
Teacher 5.4 years ago, created an answer with at least 3 up-votes. For A: Machine Learning Tutorials In Python
Appreciated 5.4 years ago, created a post with more than 5 votes. For A: Machine Learning Tutorials In Python
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Chip-Seq Data Analysis
Appreciated 6.1 years ago, created a post with more than 5 votes. For Chip-Seq Data Analysis
Appreciated 6.3 years ago, created a post with more than 5 votes. For A: Gatk Alignertargetcreator Error
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