More posts like this
-
PLINK ped file
written by loy_loy •Hi everyone, I am trying to run a PLINK analysis with GWAS summary stats. I want to filter the data to get a selection of …
-
Converting csv or text files to ped and map file for GWAS
written by JFeng •Does anyone know how to convert csv or text file to ped and map format so that I could do association analysis using PLINK? What …
-
Phased genotype hapmap3 data encoded as 0 1.
written by nastasia •Dear Community, I would like to use *GWAsimulator* to simulate GWAS data for different populations. This tool consider only phased data as input. Each row …
-
1001 Arabidopsis SNP
written by shawn •Hi everyone, I am learning to do some GWAS analysis in Arabidopsis. I used some accessions from the 1135 list (1001 genomes project)for a GWAS …
-
Convert GBS hapmap file into Plink bed file
written by hd59430 •Dear all, I'm analyzing more than 200K SNPs across hundreds of diverse plant accessions. We got the data from GBS, so the raw SNP dataset …
-
Latest release of '1000 genomes data'
written by tesfadej2003 •Hi all, Q1. Does anyone know a database that contains a single PED and MAP file of the latest release of '1000 genomes data'? Q2. …
-
Use Plink to calculate OR for homozygous ?
written by lmobuchon •Hi everyone, I would like to calculate OR for heterozygous and homozygous for the risk allele of the SNP I identified by GWAS. I only …
-
How to convert multiple vcf files to a ped file?
written by line1438 •I had 421 vcf files, I want to convert the all vcf files to the ped file (format of plink), and I want to merge …
-
PED&MAP in Plink
written by shangzhener •<p>Hi, thanks for taking the time. I am learning Plink these days and find one question. I download the example(called hapmap) in the website and …
-
Conversion Of Ped/Map Or Bim/Bim/ Fam Files To Dosage For Gwas Mit Probable And Comparison With Imp…
written by mathias.gorski •Hi all, the title says it all: I have plink compatible ped/map (bim/bam/fam) data and want to compare this genotype data with imputed data and …