Link to original (closed-access) manuscript: https://www.nature.com/articles/ng.3014
Link to open-access version of the manuscript: https://paperpile.com/shared/JEVaXW
(1) qtigc_meta.18Jan2012.all.txt.gz
This file is downloadable via Zenodo: https://doi.org/10.5281/zenodo.1414598 which includes a description of the file.
- The order that the cohorts appear in the 'DIRECTIONS' column of this file is included in the meta_qtigc.rev.17Jan2012.params file.
(1) meta_qtigc.rev.17Jan2012.params
Params file to be passed to mantel.pl. Lists the cohort name, lambda from GWAS of that individual cohort, sample size, phenotype adjustment factor (if necessary) and name of the file containing summary-level data for that cohort for the meta-analysis.
(2) Statistics/Distributions.pm
Perl module for calculating probabilities from distributions (used by mantel.pl)
(1) mantel.pl and meta_qt_03092011.pl run inverse variance-weighted fixed effects meta-analysis
(2) qqplot_by_INFO.R and qqplot_by_maf.R plot a QQ plot, stratifying SNPs by imputation info score and minor allele frequency, respectively.
(3) parse_loci.pl and parse_clumps.pl for processing post-meta data.