Chunk #49 — Methods — URLs for software use

Source

Genetic diversity fuels gene discovery for tobacco and alcohol use.

Embedded

yes

Text

BCFtools, http://samtools.github.io/bcftools/; BOLT-LMM, https://data.broadinstitute.org/alkesgroup/BOLT-LMM/; cov-LDSC, https://github.com/immunogenomics/cov-ldsc; EAGLE, https://alkesgroup.broadinstitute.org/Eagle/; GCTA, http://cnsgenomics.com/software/gcta/; IMPUTE2, https://mathgen.stats.ox.ac.uk/impute/impute_v2.html; LDpred, https://github.com/bvilhjal/ldpred/; LDSC, https://github.com/bulik/ldsc/; MEMO (rareGWAMA), https://github.com/dajiangliu/rareGWAMA/; Minimac3, https://genome.sph.umich.edu/wiki/Minimac3; PLINK, https://www.cog-genomics.org/plink/; R, https://www.r-project.org/; RATES, https://github.com/wangc29/RATES; RVTESTS, https://github.com/zhanxw/rvtests/; SAIGE, https://github.com/weizhouUMICH/SAIGE; SHAPEIT, http://mathgen.stats.ox.ac.uk/genetics_software/shapeit/shapeit.html; TESLA, https://github.com/funfunchen/rareGWAMA; VCFtools, https://vcftools.github.io/index.html.