Showing 6 of total 6 results (show query)
mrcieu
TwoSampleMR:Two Sample MR Functions and Interface to MRC Integrative Epidemiology Unit OpenGWAS Database
A package for performing Mendelian randomization using GWAS summary data. It uses the IEU OpenGWAS database <https://gwas.mrcieu.ac.uk/> to automatically obtain data, and a wide range of methods to run the analysis.
Maintained by Gibran Hemani. Last updated 4 days ago.
476 stars 11.27 score 1.7k scripts 1 dependents
bioc
MungeSumstats:Standardise summary statistics from GWAS
The *MungeSumstats* package is designed to facilitate the standardisation of GWAS summary statistics. It reformats inputted summary statisitics to include SNP, CHR, BP and can look up these values if any are missing. It also pefrorms dozens of QC and filtering steps to ensure high data quality and minimise inter-study differences.
Maintained by Alan Murphy. Last updated 3 months ago.
snpwholegenomegeneticscomparativegenomicsgenomewideassociationgenomicvariationpreprocessing
3 stars 6.23 score 91 scriptsmrcieu
CAMeRa:CAMeRa (Cross Ancestral Mendelian Randomisation)
CAMERA estimates joint causal effect in multiple ancestries and detects pleiotropy via the zero relevance model.
Maintained by Gibran Hemani. Last updated 12 months ago.
causal-inferencegwas-summary-statisticsmendelian-randomisationmulti-ancestry
2 stars 5.15 score 175 scriptsmrcieu
GwasDataImport:Import EBI Data to OpenGWAS
Determine the new EBI data not present in OpenGWAS. Download dataset and import metadata. Upload processed data and metadata to OpenGWAS.
Maintained by Gibran Hemani. Last updated 4 months ago.
3 stars 5.12 score 14 scriptsmrcieu
gwasglue:GWAS summary data sources connected to analytical tools
Many tools exist that use GWAS summary data for colocalisation, fine mapping, Mendelian randomization, visualisation, etc. This package is a conduit that connects R packages that can retrieve GWAS summary data to various tools for analysing those data.
Maintained by Gibran Hemani. Last updated 3 years ago.
134 stars 4.79 score 91 scriptsmrcieu
CheckSumStats:CheckSumStats
CheckSumStats is an R package for checking the accuracy of meta- and summary-data from genome-wide association studies (GWAS) prior to their use in post-GWAS applications. For example, the package provides tools for checking that the reported effect allele and effect allele frequency columns are correct. It also checks for possible issues in the reported effect sizes that might introduce bias into downstream analyses.
Maintained by Philip Haycock. Last updated 2 years ago.
8 stars 3.00 score 25 scripts