.dockerignore
.flake8
CHANGELOG.md
Dockerfile
LICENSE
MANIFEST.in
Makefile
README.md
pyproject.toml
.github/workflows/ci.yml
.github/workflows/publish.yml
benchmarks/Dockerfile.benchmark
benchmarks/README.md
benchmarks/analyze_profiles.py
benchmarks/benchmark_commits.sh
benchmarks/compare_results.py
benchmarks/generate_test_bgen.py
benchmarks/run_benchmark.py
examples/data/data
examples/data/data.bcor
examples/data/data.bcor.idx
examples/data/data.bgen
examples/data/data.bgen.bgi
examples/data/data.ld
examples/data/data.sample
examples/data/data.z
ldcov/__init__.py
ldcov.egg-info/PKG-INFO
ldcov.egg-info/SOURCES.txt
ldcov.egg-info/dependency_links.txt
ldcov.egg-info/entry_points.txt
ldcov.egg-info/requires.txt
ldcov.egg-info/scm_file_list.json
ldcov.egg-info/scm_version.json
ldcov.egg-info/top_level.txt
ldcov/cli/__init__.py
ldcov/cli/commands.py
ldcov/cli/main.py
ldcov/compute/__init__.py
ldcov/compute/correlation.py
ldcov/compute/covariate.py
ldcov/compute/projection.py
ldcov/io/__init__.py
ldcov/io/bcor_file_handle.py
ldcov/io/bcor_index.py
ldcov/io/bcor_reader.py
ldcov/io/bcor_writer.py
ldcov/io/correlation_io.py
ldcov/io/covariate_loader.py
ldcov/io/fs_utils.py
ldcov/io/variant_index.py
ldcov/io/blockmatrix/__init__.py
ldcov/io/blockmatrix/block_codec.py
ldcov/io/blockmatrix/partitioner.py
ldcov/io/blockmatrix/reader.py
ldcov/ld_bm/__init__.py
ldcov/ld_bm/cli.py
ldcov/ld_bm/extract.py
ldcov/utils/__init__.py
ldcov/utils/categorical_utils.py
ldcov/utils/region_utils.py
ldcov/utils/variant_filter.py
scripts/__init__.py
scripts/make_bcor_idx.py
scripts/make_bm_variant_index.py
tests/conftest.py
tests/helpers.py
tests/test_bcor_file_handle.py
tests/test_bcor_gcs.py
tests/test_bcor_index.py
tests/test_bcor_reader_subset.py
tests/test_block_codec.py
tests/test_blockmatrix_partitioner.py
tests/test_blockmatrix_reader.py
tests/test_categorical_utils.py
tests/test_cli.py
tests/test_compute.py
tests/test_correlation_io.py
tests/test_covariate.py
tests/test_covariate_loader.py
tests/test_fs_utils.py
tests/test_ld_bm_cli.py
tests/test_ld_bm_extract.py
tests/test_ld_bm_gcs.py
tests/test_ld_bm_s3.py
tests/test_projection.py
tests/test_region_utils.py
tests/test_variant_filter.py
tests/test_variant_index.py