User: Peixe

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Peixe580
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580
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Spain
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4 months, 1 week ago
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8 years, 4 months ago
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Posts by Peixe

<prev • 57 results • page 1 of 6 • next >
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Comment: C: Power of an association study / GWAS
... Thanks, Kevin. Given that this is very specific to the bioinformatics field I thought it would be ok to ask here. I moved my question to stackExchange-CrossValidated as you suggested. Here: https://stats.stackexchange.com/questions/353422/power-of-an-association-study-gwas ...
written 15 months ago by Peixe580
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Power of an association study / GWAS
... Hi there, I came across this chunk of text in this [paper][1]: > The power of association studies is dependent on the variance > explained by a locus; thus, for a disease that affects 1% of the > population, we have the same power to detect a risk locus of 50% > frequency and odd ...
gwas genetic epidemiology statistics power written 16 months ago by Peixe580 • updated 16 months ago by zx87548.2k
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Comment: C: Effect size of a SNP - contribution to genetic variance
... Hi Collin! I had already figured more or less the same: It contains everything an effect size formula should contain, however what I ideally need it would be a formal text book reference or something similar. Thanks anyway for your time! ...
written 2.9 years ago by Peixe580
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Effect size of a SNP - contribution to genetic variance
... Hi, I am trying to find a formal reference and more details to this equation: ![enter image description here][1] I saw it in this [Nature Genetics paper][2] (Online Methods section), by Park *et al.* (2010). This equation determines the contribution of a SNP to the genetic variance of a trait or ...
effect size complex traits snp statistics written 2.9 years ago by Peixe580
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Comment: C: GWAS SNPs LD Clumping
... Yes, I already took into account the population issue. I work with European populations, so CEU. Thanks, Larry, for pointing that! ...
written 5.1 years ago by Peixe580
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GWAS SNPs LD Clumping
... Hello, I am trying to figure out how to know if GWAS SNPs tagging a same or near region do come from the same real association signal or not. In other words, if a later GWAS identifies a close SNP to the signal we have, I would like to know if its an independent loci or its just a replica. I start ...
gwas plink ld written 5.1 years ago by Peixe580 • updated 5.1 years ago by Larry_Parnell16k
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Comment: C: Extract A Group Of Fasta Sequences From A File
... Have you imported the module? Like this: from Bio import SeqIO p. ...
written 5.1 years ago by Peixe580 • updated 13 months ago by RamRS24k
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Answer: A: What Does Genetype ("0/0", "0/1" Or "1/1") In *.Vcf File Represent?
... Just point out that if the bar is | means that the genotypes have been phased, that is have been assigned to which chromosome comes each allele. If the bar is like / means it has not been phased. ...
written 5.9 years ago by Peixe580
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Vcftools - Alternative Vcf To Tped Conversion Tool?
... Hi, Does anyone know another tool besides vcftools to convert from vcf format to tped, or has any script to share? The issue is the following: I have a pipeline working on a cluster, and looks like when several jobs are requiring vcftools at the same time to convert to tped, this slows the process ...
vcf vcftools conversion written 6.0 years ago by Peixe580
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Comment: C: Mastervar - Complete Genomics Data Format To Vcf
... Hi, Unfortunately I was not able to make it work and quited by now. As said, I tried different conversion tools, but all returned a very weird file with clear errors compared to original. I am really surprised that no further information on this issue explaining the thing a bit more could be found.. ...
written 6.0 years ago by Peixe580

Latest awards to Peixe

Student 10 months ago, asked a question with at least 3 up-votes. For Compare Two Fasta Files By Headers
Great Question 18 months ago, created a question with more than 5,000 views. For Compare Two Fasta Files By Headers
Popular Question 18 months ago, created a question with more than 1,000 views. For Compare Two Fasta Files By Headers
Great Question 18 months ago, created a question with more than 5,000 views. For Retrieve Single Vcf From List Of Snp Rs#
Student 21 months ago, asked a question with at least 3 up-votes. For Compare Two Fasta Files By Headers
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: What Does Genetype ("0/0", "0/1" Or "1/1") In *.Vcf File Represent?
Great Question 2.8 years ago, created a question with more than 5,000 views. For Compare Two Fasta Files By Headers
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Vcftools - Alternative Vcf To Tped Conversion Tool?
Popular Question 4.0 years ago, created a question with more than 1,000 views. For Compare Two Fasta Files By Headers
Popular Question 4.4 years ago, created a question with more than 1,000 views. For Compare Two Fasta Files By Headers
Popular Question 4.5 years ago, created a question with more than 1,000 views. For Get Snp Position From A Python Interface.
Popular Question 4.6 years ago, created a question with more than 1,000 views. For Retrieve Single Vcf From List Of Snp Rs#
Popular Question 4.9 years ago, created a question with more than 1,000 views. For Compare Two Fasta Files By Headers
Popular Question 4.9 years ago, created a question with more than 1,000 views. For Retrieve Single Vcf From List Of Snp Rs#
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Compare Two Fasta Files By Headers
Supporter 5.5 years ago, voted at least 25 times.
Student 6.5 years ago, asked a question with at least 3 up-votes. For Assign Intergenic Snps To Gene.
Commentator 6.7 years ago, created a comment with at least 3 up-votes. For C: Snp Rsid By Location?
Student 8.3 years ago, asked a question with at least 3 up-votes. For Compare Two Fasta Files By Headers
Appreciated 8.3 years ago, created a post with more than 5 votes. For Compare Two Fasta Files By Headers
Good Question 8.3 years ago, asked a question that was upvoted at least 5 times. For Compare Two Fasta Files By Headers
Popular Question 8.3 years ago, created a question with more than 1,000 views. For Compare Two Fasta Files By Headers

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