AUTHORS.rst
CONTRIBUTING.rst
HISTORY.rst
LICENSE
MANIFEST.in
README.rst
setup.cfg
setup.py
docs/Makefile
docs/authors.rst
docs/conf.py
docs/contributing.rst
docs/history.rst
docs/index.rst
docs/installation.rst
docs/make.bat
docs/readme.rst
docs/usage.rst
docs/modules/BismarkSam.rst
docs/modules/CytosineCoverageFile.rst
docs/modules/align_plate_positions.rst
docs/modules/methylation_state.rst
methlab/BismarkSam.py
methlab/CytosineCoverageFile.py
methlab/__init__.py
methlab/_alogsumexp.py
methlab/align_fastq_with_plate_positions.py
methlab/cli.py
methlab/epiclinestools.py
methlab/estimate_beta_parameters.py
methlab/methylation_state.py
methlab.egg-info/PKG-INFO
methlab.egg-info/SOURCES.txt
methlab.egg-info/dependency_links.txt
methlab.egg-info/entry_points.txt
methlab.egg-info/not-zip-safe
methlab.egg-info/requires.txt
methlab.egg-info/top_level.txt
methlab/data/nordborg_nextera_index_sets.csv
methlab/data/plate_2022-007.csv
methlab/data/unique_nextera_dual_xt.csv
tests/__init__.py
tests/test_BismarkSam.py
tests/test_CytosineCoverageFile.py
tests/test_align_fastq_with_plate_positions.py
tests/test_epiclinestools.py
tests/test_methylation_state.py
tests/test_data/chloroplast.sam
tests/test_data/gene_read_counts.csv
tests/test_data/readme.txt
tests/test_data/strandID.sam
tests/test_data/test_TAIR10_GFF3_genes_transposons.gff
tests/test_data/test_coverage2cytosine.txt.gz