LICENSE.md
MANIFEST.in
README.md
setup.py
orfmine/__init__.py
orfmine.egg-info/PKG-INFO
orfmine.egg-info/SOURCES.txt
orfmine.egg-info/dependency_links.txt
orfmine.egg-info/entry_points.txt
orfmine.egg-info/requires.txt
orfmine.egg-info/top_level.txt
orfmine/orfdate/__init__.py
orfmine/orfdate/orfdate.py
orfmine/orfdate/lib/__init__.py
orfmine/orfdate/lib/arguments.py
orfmine/orfold/__init__.py
orfmine/orfold/orfold.py
orfmine/orfold/data/globular.tab
orfmine/orfold/lib/arguments.py
orfmine/orfold/lib/utils.py
orfmine/orfold/scripts/external_software.py
orfmine/orfold/scripts/orfplot.py
orfmine/orfribo/Snakefile
orfmine/orfribo/__init__.py
orfmine/orfribo/config.yaml
orfmine/orfribo/orfribo.py
orfmine/orfribo/Rscripts/find_adapter_sequence.R
orfmine/orfribo/Rscripts/find_adapter_sequence_original.R
orfmine/orfribo/Rscripts/install_dependencies.R
orfmine/orfribo/Rscripts/periodicity_riboWaltz_exome.R
orfmine/orfribo/Rscripts/periodicity_riboWaltz_exome_original.R
orfmine/orfribo/Rscripts/ribowaltz_psite_with_NA_control.R
orfmine/orfribo/lib/__init__.py
orfmine/orfribo/lib/argparser.py
orfmine/orfribo/lib/biobjects.py
orfmine/orfribo/lib/constants.py
orfmine/orfribo/lib/gffutils.py
orfmine/orfribo/lib/loaders.py
orfmine/orfribo/lib/noncoding_objects.py
orfmine/orfribo/lib/sambam.py
orfmine/orfribo/lib/sequtils.py
orfmine/orfribo/lib/utils.py
orfmine/orfribo/scripts/BAM2Reads.py
orfmine/orfribo/scripts/ORFget.py
orfmine/orfribo/scripts/ORFstats.py
orfmine/orfribo/scripts/__init__.py
orfmine/orfribo/scripts/argparser.py
orfmine/orfribo/scripts/biobjects.py
orfmine/orfribo/scripts/concatenate.py
orfmine/orfribo/scripts/constants.py
orfmine/orfribo/scripts/gffutils.py
orfmine/orfribo/scripts/loaders.py
orfmine/orfribo/scripts/noncoding_objects.py
orfmine/orfribo/scripts/parallel.py
orfmine/orfribo/scripts/report.py
orfmine/orfribo/scripts/sambam.py
orfmine/orfribo/scripts/selected_length.py
orfmine/orfribo/scripts/sequtils.py
orfmine/orfribo/scripts/utils.py
orfmine/orftrack/__init__.py
orfmine/orftrack/orftrack.py
orfmine/orftrack/lib/__init__.py
orfmine/orftrack/lib/fasta_parser.py
orfmine/orftrack/lib/gff_parser.py
orfmine/orftrack/lib/inspect.py
orfmine/orftrack/lib/logHandler.py
orfmine/orftrack/lib/mapping.py
orfmine/orftrack/lib/parameters.py
orfmine/orftrack/lib/seqio.py
orfmine/orftrack/lib/tools.py
orfmine/orftrack/lib/utils.py
orfmine/orftrack/scripts/ORFget.py
orfmine/orftrack/scripts/__init__.py
orfmine/orftrack/scripts/gff2prot.py
orfmine/utilities/__init__.py
orfmine/utilities/container.py
orfmine/utilities/main.py
orfmine/utilities/data/codon_table_1.json
orfmine/utilities/data/codon_table_10.json
orfmine/utilities/data/codon_table_11.json
orfmine/utilities/data/codon_table_12.json
orfmine/utilities/data/codon_table_13.json
orfmine/utilities/data/codon_table_14.json
orfmine/utilities/data/codon_table_15.json
orfmine/utilities/data/codon_table_16.json
orfmine/utilities/data/codon_table_2.json
orfmine/utilities/data/codon_table_21.json
orfmine/utilities/data/codon_table_22.json
orfmine/utilities/data/codon_table_23.json
orfmine/utilities/data/codon_table_24.json
orfmine/utilities/data/codon_table_25.json
orfmine/utilities/data/codon_table_26.json
orfmine/utilities/data/codon_table_27.json
orfmine/utilities/data/codon_table_28.json
orfmine/utilities/data/codon_table_29.json
orfmine/utilities/data/codon_table_3.json
orfmine/utilities/data/codon_table_30.json
orfmine/utilities/data/codon_table_31.json
orfmine/utilities/data/codon_table_32.json
orfmine/utilities/data/codon_table_33.json
orfmine/utilities/data/codon_table_4.json
orfmine/utilities/data/codon_table_5.json
orfmine/utilities/data/codon_table_6.json
orfmine/utilities/data/codon_table_9.json
orfmine/utilities/data/gc.prt
orfmine/utilities/lib/__init__.py
orfmine/utilities/lib/logging.py
orfmine/utilities/lib/table_handlers.py