Files in CreRecombinase/RColumbo

R Package to accompany the Columbo method

.Rbuildignore

.gitignore

DESCRIPTION

NAMESPACE

R/GwasSim.R R/LD.R R/RSSgen.R R/RcppExports.R R/SNPrelate.R R/h5fun.R R/orthogonalize.R R/snp_exp_import.R

RColumbo.Rproj

README.md analyses/Candidate_eQTL.Rmd analyses/Cis_Trans_eQTL.R analyses/Clean_Data_Height_DGN.R analyses/Clean_Data_Height_GTEx.R analyses/Clean_Data_IBD_GTEx.R analyses/ColorIndependent.R analyses/DGN_eQTL.R analyses/DGN_heritability.R analyses/DGN_v_GTEx_LASSO.Rmd

analyses/DGN_v_GTEx_LASSO.nb.html

analyses/EUR_IBD_GWAS_diagnostics.Rmd

analyses/EUR_IBD_GWAS_diagnostics.nb.html

analyses/GTEx_MeQTL.R analyses/GTEx_heritability.R analyses/Generate_LD.R analyses/Independent_GWAS.R analyses/Independent_SNPs.R analyses/Independent_SNPs.Rmd

analyses/Independent_SNPs.nb.html

analyses/Map_Elasticnet.R analyses/Prepare_Lambda_Estimation.R analyses/RColumboScratch.R analyses/Snakemake_scripts/GDS2BED.R analyses/Snakemake_scripts/Import_GTEX_EXP_H5.R analyses/Snakemake_scripts/Import_GTEX_H5.R analyses/Snakemake_scripts/Import_GTEx_GDS.R analyses/Snakemake_scripts/Import_GTEx_SNP_H5.R analyses/Snakemake_scripts/gcta_grm.R analyses/Snakemake_scripts/gcta_heritability.R analyses/Spike_Slab_GWAS.Rmd

analyses/Spike_Slab_GWAS.html

analyses/Test_Chunksize.R analyses/elasticnet_VB.Rmd

analyses/elasticnet_VB.nb.html

analyses/eqtl_gwas_sample/GTEx_WB_cis.tsv

analyses/eqtl_gwas_sample/GTEx_WB_trans_truncated.tsv

analyses/eqtl_gwas_sample/IBD_GWAS_Chr12.tsv

analyses/eqtl_gwas_sample/eQTL_GWAS_marginals.Rmd

analyses/eqtl_gwas_sample/eQTL_GWAS_marginals.nb.html

analyses/eqtl_gwas_sample/sub_EUR_IBD_gwas_data.tsv

analyses/eqtl_gwas_sample/sub_EUR_IBD_gwas_data.tsv.README

analyses/estimate_lambda.R analyses/map_eQTL_DGN.R analyses/map_eQTL_GTEx.R analyses/sparklyrtest.R

configure

configure.ac

man/hello.Rd

src/Graph.hpp

src/LD.cpp

src/Makevars

src/Makevars.in

src/RcppExports.cpp

src/blosc/CMakeLists.txt

src/blosc/bitshuffle-avx2.c

src/blosc/bitshuffle-avx2.h

src/blosc/bitshuffle-generic.c

src/blosc/bitshuffle-generic.h

src/blosc/bitshuffle-sse2.c

src/blosc/bitshuffle-sse2.h

src/blosc/blosc-export.h

src/blosc/blosc.c

src/blosc/blosc.h

src/blosc/blosclz.c

src/blosc/blosclz.h

src/blosc/config.h.in

src/blosc/shuffle-avx2.c

src/blosc/shuffle-avx2.h

src/blosc/shuffle-common.h

src/blosc/shuffle-generic.c

src/blosc/shuffle-generic.h

src/blosc/shuffle-sse2.c

src/blosc/shuffle-sse2.h

src/blosc/shuffle.c

src/blosc/shuffle.h

src/blosc_filter.h

src/blosc_helpers.cpp

src/blosc_helpers.h

src/h5func.cpp

src/h5func.hpp

src/import_snp.cpp

src/map_eqtl.cpp

tests/testthat.R

tests/testthat/one.rds

tests/testthat/testLD.R

tests/true_R.csv

tests/true_SigHat.csv

CreRecombinase/RColumbo documentation built on May 6, 2019, 12:52 p.m.