Hello, I am new to studying haplotype associations and am looking for guidance on performing LD analysis on INDELs. I want to conduct SNP association …

Hi everyone , I'm trying to use haploview software to plot LD for arch chromosomes but I have tassel format data(HapMap) I converted the data …

Hi all, I am trying to plot one population LD decay showing multiple chromosomes separately. I did calculations in TASSEL and uploaded the results in …

Hello, I tried submitting my map and ped files for IBS and relationship calculation between samples in SNPduo. It was able to read the map …

Hi everyone, I failed to read BGEN format imputed SNPs data ( ukb_imp_chr**_v3.bgen ) into BOLT-LMM software using csh. According to the instruction, we can …

I can't seem to get Haploview to accept PLINK files. I downloaded the 'sample.ped' and 'sample.info' trial files from this [haploview website][1]. I am loading …

I have super newbie questions. As far as I understand HaploView can display a PED file containing formatted collection of unphased genotype data. But HaploView …

I am trying to calculate the extent of LD in 10 populations. I have a plink file containing all the data in one ped file. …

<p>I am trying to visualize LD blocks within 1Mb flanking a SNP. And I don&#39;t want to use Haploview because it uses Hap Map 3 …

<p>How can I convert a multisample vcf file to a format that can be loaded in Haploview?</p> <p>I have WGS SNP calls for a set …