LICENSE
README.md
pyproject.toml
setup.py
pytransdecoder/__init__.py
pytransdecoder/__main__.py
pytransdecoder/cli.py
pytransdecoder/genome.py
pytransdecoder/longorfs.py
pytransdecoder/predict.py
pytransdecoder.egg-info/PKG-INFO
pytransdecoder.egg-info/SOURCES.txt
pytransdecoder.egg-info/dependency_links.txt
pytransdecoder.egg-info/entry_points.txt
pytransdecoder.egg-info/requires.txt
pytransdecoder.egg-info/top_level.txt
pytransdecoder/core/__init__.py
pytransdecoder/core/base_freqs.py
pytransdecoder/core/decoys.py
pytransdecoder/core/fasta.py
pytransdecoder/core/gene_model.py
pytransdecoder/core/gff3_parser.py
pytransdecoder/core/homology_starts.py
pytransdecoder/core/kozak.py
pytransdecoder/core/models.py
pytransdecoder/core/orf_finder.py
pytransdecoder/core/presets.py
pytransdecoder/core/prng.py
pytransdecoder/core/pwm.py
pytransdecoder/core/sequence.py
pytransdecoder/core/translator.py
pytransdecoder/core/writers.py
pytransdecoder/presets/apicomplexan/hexamer.scores.gz
pytransdecoder/presets/apicomplexan/kozak.tsv
pytransdecoder/presets/apicomplexan/preset.json
pytransdecoder/presets/apicomplexan/thresholds.tsv.gz
pytransdecoder/presets/apicomplexan/training_orfs.cds.gz
pytransdecoder/presets/ciliate/hexamer.scores.gz
pytransdecoder/presets/ciliate/kozak.tsv
pytransdecoder/presets/ciliate/preset.json
pytransdecoder/presets/ciliate/thresholds.tsv.gz
pytransdecoder/presets/ciliate/training_orfs.cds.gz
pytransdecoder/presets/fungus/hexamer.scores.gz
pytransdecoder/presets/fungus/kozak.tsv
pytransdecoder/presets/fungus/preset.json
pytransdecoder/presets/fungus/thresholds.tsv.gz
pytransdecoder/presets/fungus/training_orfs.cds.gz
pytransdecoder/presets/green_alga/hexamer.scores.gz
pytransdecoder/presets/green_alga/kozak.tsv
pytransdecoder/presets/green_alga/preset.json
pytransdecoder/presets/green_alga/thresholds.tsv.gz
pytransdecoder/presets/green_alga/training_orfs.cds.gz
pytransdecoder/presets/insect/hexamer.scores.gz
pytransdecoder/presets/insect/kozak.tsv
pytransdecoder/presets/insect/preset.json
pytransdecoder/presets/insect/thresholds.tsv.gz
pytransdecoder/presets/insect/training_orfs.cds.gz
pytransdecoder/presets/mammal/hexamer.scores.gz
pytransdecoder/presets/mammal/kozak.tsv
pytransdecoder/presets/mammal/preset.json
pytransdecoder/presets/mammal/thresholds.tsv.gz
pytransdecoder/presets/mammal/training_orfs.cds.gz
pytransdecoder/presets/plant/hexamer.scores.gz
pytransdecoder/presets/plant/kozak.tsv
pytransdecoder/presets/plant/preset.json
pytransdecoder/presets/plant/thresholds.tsv.gz
pytransdecoder/presets/plant/training_orfs.cds.gz
tests/test_basic.py
tests/test_decoys.py
tests/test_fasta.py
tests/test_genome_bed.py
tests/test_homology_starts.py
tests/test_qvalue_modes.py