.gitignore
.travis.yml
LICENSE
MANIFEST.in
README.md
setup.cfg
setup.py
RCK.egg-info/PKG-INFO
RCK.egg-info/SOURCES.txt
RCK.egg-info/dependency_links.txt
RCK.egg-info/entry_points.txt
RCK.egg-info/requires.txt
RCK.egg-info/top_level.txt
docs/.DS_Store
docs/Adjacencies.md
docs/AdjacencyGroups.md
docs/Installation.md
docs/README.md
docs/Segments.md
docs/Usage.md
docs/img/RCK_Overview_vertical.png
rck/__init__.py
rck/rck_run.py
rck/core/__init__.py
rck/core/graph.py
rck/core/ilp_gurobi.py
rck/core/io.py
rck/core/process.py
rck/core/structures.py
rck/utils/__init__.py
rck/utils/rck_input_refine.py
rck/utils/adj/__init__.py
rck/utils/adj/analysis.py
rck/utils/adj/convert.py
rck/utils/adj/long_reads.py
rck/utils/adj/main_chrs.txt
rck/utils/adj/process.py
rck/utils/adj/rck_adj_long_reads.py
rck/utils/adj/rck_adj_process.py
rck/utils/adj/rck_adj_rck2x.py
rck/utils/adj/rck_adj_stats.py
rck/utils/adj/rck_adj_x2rck.py
rck/utils/scn/__init__.py
rck/utils/scn/convert.py
rck/utils/scn/rck_scnb.py
rck/utils/scn/rck_scnt_process.py
rck/utils/scn/rck_scnt_x2rck.py
rck/utils/scn/scnt_distance.py