LICENCE.txt
MANIFEST.in
README.rst
ez_setup.py
pypi-readme.rst
setup.py
dnachisel/DnaOptimizationProblem.py
dnachisel/Location.py
dnachisel/MutationSpace.py
dnachisel/SequencePattern.py
dnachisel/SpecEvaluation.py
dnachisel/Specification.py
dnachisel/__init__.py
dnachisel/version.py
dnachisel.egg-info/PKG-INFO
dnachisel.egg-info/SOURCES.txt
dnachisel.egg-info/dependency_links.txt
dnachisel.egg-info/requires.txt
dnachisel.egg-info/top_level.txt
dnachisel/biotools/__init__.py
dnachisel/biotools/biotables.py
dnachisel/biotools/biotools.py
dnachisel/biotools/features_annotations.py
dnachisel/biotools/data/aa_long_names.csv
dnachisel/biotools/data/codons_translations.csv
dnachisel/biotools/data/iupac_notation.csv
dnachisel/biotools/data/nucleotide_to_regexpr.csv
dnachisel/biotools/data/codon_usage_tables/README.txt
dnachisel/biotools/data/codon_usage_tables/b_subtilis_1423.csv
dnachisel/biotools/data/codon_usage_tables/c_elegans_6239.csv
dnachisel/biotools/data/codon_usage_tables/d_melanogaster_7227.csv
dnachisel/biotools/data/codon_usage_tables/e_coli_316407.csv
dnachisel/biotools/data/codon_usage_tables/g_gallus_9031.csv
dnachisel/biotools/data/codon_usage_tables/h_sapiens_9606.csv
dnachisel/biotools/data/codon_usage_tables/m_musculus_10090.csv
dnachisel/biotools/data/codon_usage_tables/m_musculus_domesticus_10092.csv
dnachisel/biotools/data/codon_usage_tables/s_cerevisiae_4932.csv
dnachisel/builtin_specifications/AvoidBlastMatches.py
dnachisel/builtin_specifications/AvoidChanges.py
dnachisel/builtin_specifications/AvoidHairpins.py
dnachisel/builtin_specifications/AvoidNonUniqueSegments.py
dnachisel/builtin_specifications/AvoidPattern.py
dnachisel/builtin_specifications/AvoidStopCodons.py
dnachisel/builtin_specifications/CodonOptimize.py
dnachisel/builtin_specifications/CodonSpecification.py
dnachisel/builtin_specifications/EnforceChoice.py
dnachisel/builtin_specifications/EnforceGCContent.py
dnachisel/builtin_specifications/EnforcePatternOccurence.py
dnachisel/builtin_specifications/EnforceRegionsCompatibility.py
dnachisel/builtin_specifications/EnforceSequence.py
dnachisel/builtin_specifications/EnforceTerminalGCContent.py
dnachisel/builtin_specifications/EnforceTranslation.py
dnachisel/builtin_specifications/PatternSpecification.py
dnachisel/builtin_specifications/SequenceLengthBounds.py
dnachisel/builtin_specifications/TerminalSpecification.py
dnachisel/builtin_specifications/VoidSpecification.py
dnachisel/builtin_specifications/__init__.py
dnachisel/reports/__init__.py
dnachisel/reports/constraints_reports.py
dnachisel/reports/optimization_reports.py
dnachisel/utils/__init__.py
dnachisel/utils/utils.py
docs/Makefile
docs/README.md
docs/conf.py
docs/favicon.png
docs/index.rst
docs/make.bat
docs/makehtml.sh
docs/_static/css/main.css
docs/_static/images/confectionary.png
docs/_static/images/dnachisel_algorithm.gif
docs/_static/images/geometry2.png
docs/_static/images/html_logo.png
docs/_static/images/pw_maze_black (copy).png
docs/_static/images/pw_maze_black.png
docs/_static/images/pw_maze_dark.png
docs/_static/images/pw_maze_white.png
docs/_static/images/seigaiha.png
docs/_static/images/title.png
docs/examples/non_unique_kmers_minimization.rst
docs/examples/pattern_instertion.rst
docs/examples/plasmid_optimization.rst
docs/ref/biotools.rst
docs/ref/builtin_specifications.rst
docs/ref/core_classes.rst
docs/ref/ref.rst
docs/ref/reports.rst
scripts/dnachisel