Files in stephenslab/LDshrink
A one-stop R package for shrinkage estimation of linkage disequilibrium.
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/LDshrink.R
R/RcppExports.R
R/block_utils.R
R/ldshrink-package.R
R/libutils.R
R/zzz.R
README.md
data-raw/download_map.R
data-raw/gds_hap.R
data-raw/panel_ld.R
data/CEU_map.rda
data/map_parameters.rda
inst/HapmapII_GRCh37_RecombinationHotspots.tar.gz
inst/fourier_ls-all.bed.gz
inst/include/ldshrink.hpp
inst/include/ldshrink/LD.hpp
inst/include/ldshrink/mapdiff.hpp
inst/ldetect_files/P00_00_partition_chromosome.py
inst/ldetect_files/P00_01_calc_covariance.py
inst/ldetect_files/P01_matrix_to_vector_pipeline.py
inst/ldetect_files/P02_minima_pipeline.py
inst/ldetect_files/P03_extract_bpoints.py
inst/ldetect_files/partition_chromosome.py
inst/m_files/compute_shrinkage.m
inst/m_files/corrcov.m
inst/m_files/get_corr.m
inst/m_files/get_corr_d.m
inst/m_files/shrink_cov.m
inst/m_files/shrink_m.m
inst/m_files/wrap_corr.m
inst/test_gdsf/fourier_ls-all.bed
inst/test_gdsf/map_sub_19.txt.gz
inst/test_gdsf/sub_19.gds
inst/test_gdsf/sub_19.impute.hap
inst/test_gdsf/sub_19.impute.hap.indv
inst/test_gdsf/sub_19.impute.legend
inst/test_gdsf/sub_19.log
inst/test_gdsf/sub_19.recode.vcf
inst/test_gdsf/sub_snpid.txt
ldshrink.Rproj
man/assign_map.Rd
man/assign_snp_block.Rd
man/chunk_genome.Rd
man/ldshrink-package.Rd
man/ldshrink.Rd
src/LD.cpp
src/LD_p.cpp
src/Makevars
src/Makevars.win
src/RcppExports.cpp
src/SNPcoord.cpp
tests/testthat.R
tests/testthat/test_LD.R
tests/testthat/test_sparse.R
tests/testthat/test_util.R
