LICENSE
MANIFEST.in
Makefile
README.md
pyproject.toml
requirements.txt
setup.py
aindex/__init__.py
aindex/cli.py
aindex/core/__init__.py
aindex/core/aindex.py
patches/emphf_cmake_version.patch
patches/platform_compat.hpp
scripts/compute_aindex.py
scripts/compute_index.py
scripts/reads_to_fasta.py
src/Compute_aindex.cpp
src/Compute_aindex13.cpp
src/Compute_index.cpp
src/Compute_reads.cpp
src/Count_kmers.cpp
src/build_13mer_hash.cpp
src/count_kmers13.cpp
src/debrujin.cpp
src/debrujin.hpp
src/dna_bitseq.hpp
src/generate_all_13mers.cpp
src/hash.cpp
src/hash.hpp
src/helpers.cpp
src/helpers.hpp
src/kmers.cpp
src/kmers.hpp
src/python_wrapper.cpp
src/read.cpp
src/read.hpp
src/settings.cpp
src/settings.hpp
src/emphf/base_hash.hpp
src/emphf/bitpair_vector.hpp
src/emphf/common.hpp
src/emphf/emphf_config.hpp
src/emphf/mphf.hpp
src/emphf/perfutils.hpp
src/emphf/ranked_bitpair_vector.hpp