raw_ALSvcf: GWAS Amyotrophic lateral sclerosis ieu open GWAS project -...

raw_ALSvcfR Documentation

GWAS Amyotrophic lateral sclerosis ieu open GWAS project - Subset

Description

VCF (VCFv4.2) of the GWAS Amyotrophic lateral sclerosis ieu open GWAS project Dataset: ebi-a-GCST005647. A subset of 99 SNPs

Format

vcf document with 528 items relating to 99 SNPs

Details

A VCF file (VCFv4.2) of the GWAS Amyotrophic lateral sclerosis ieu open GWAS project has been subsetted here to act as an example summary statistic file in VCF format which has some issues in the formatting. MungeSumstats can correct these issues and produced a standardised summary statistics format.

ALSvcf.vcf

NA

Source

The summary statistics VCF (VCFv4.2) file was downloaded from https://gwas.mrcieu.ac.uk/datasets/ebi-a-GCST005647/ and formatted to a .rda with the following: #Get example VCF dataset, use GWAS Amyotrophic lateral sclerosis ALS_GWAS_VCF <- readLines("ebi-a-GCST005647.vcf.gz") #Subset to just the first 99 SNPs ALSvcf <- ALS_GWAS_VCF[1:528] writeLines(ALSvcf,"inst/extdata/ALSvcf.vcf")


neurogenomics/MungeSumstats documentation built on Aug. 10, 2024, 5:59 a.m.