More posts like this
-
Keep SNP's with call rate greater than 30 in VCF
written by Smilesky 0I have approximately 10 samples, and I am working on identifying Runs of Homozygosity (ROH). 1) Is it necessary to merge all the samples when …
-
ROH with genome in scaffolds
written by Kimbeer 0Hello all, I have two genomes of the same species that I sequenced with nanopore that are around 1.5 Gb. I would like to infer …
-
Multiple samples in PLINK
written by Begonia_pavonina 22Hello everyone, I have tried to input a GVCF file in PLINK to detect Runs Of Homozygosity (ROH) using the following scripts: plink --vcf GVCF_SNPs_edit.vcf …
-
Run of homozigosity on multiple imputed chips
written by giovanni.birolo 0Dear all, we are doing a study on the possible association between ROH and disease. We have SNP-chip data from three different chips, which have …
-
Detect the Runs of Homozygosity with the WGS data
written by zhang248 4Hi, I'm using whole genome sequencing data to detect the ROH. I want to know which tool should I use, Plink or bcftools. Thanks!
-
ROH ( Runs of Homozygosity Analysis)
written by always_learning 116Dear All, I want to know about ROH analysis ? How to perform it ? How to interpret out put ROH resut data from tools …
-
using Plink to detect runs of homozygosity
written by Tears 0Hello! I am new to plink and i am using it to detect the runs of homozygosity ROH. which output file do I use to …
-
ROH-script for graphical visualization in R
written by safiradrak 2Hi guys, do you know how can I get a graphical visualisation of ROH on each chromosome in R? I have a dog genotyping data …
-
Linkage analysis with whole -exome sequencing data
written by wanabi 6Which software do you recommend to perform classic linkage on whole exome sequencing data? Thanks
-
Regions to exclude in CNV analysis
written by wanabi 6<p>Hello,</p> <p>I have called CNVs from my WGS data and want to do some QC. For this, I want to exclude segments overlapping with more …