LICENSE.txt
MANIFEST.in
README.markdown
README.rst
setup.cfg
setup.py
tral/__init__.py
tral/configuration.py
tral/conftest.py
tral/paths.py
tral.egg-info/PKG-INFO
tral.egg-info/SOURCES.txt
tral.egg-info/dependency_links.txt
tral.egg-info/pbr.json
tral.egg-info/requires.txt
tral.egg-info/top_level.txt
tral/examples/.DS_Store
tral/examples/data
tral/examples/example_workflow_MBE2014.py
tral/examples/workflow
tral/examples/data/HIV-1_388796.faa
tral/examples/data/HIV-1_388796.pickle
tral/examples/data/Kelch_1.hmm
tral/examples/data/P51610.fasta
tral/examples/data/PF07725.pickle
tral/examples/data/PF13855.pickle
tral/examples/workflow/.DS_Store
tral/examples/workflow/PRDM_PFAM_models.hmm
tral/examples/workflow/hmm
tral/examples/workflow/log
tral/examples/workflow/results
tral/examples/workflow/split_sequence_data
tral/examples/workflow/tandem_repeat_annotation_scripts.py
tral/examples/workflow/tandem_repeat_annotation_workflow.ini
tral/examples/workflow/tandem_repeat_annotation_workflow.py
tral/examples/workflow/uniprot_PRDM.fasta
tral/examples/workflow/uniprot_PRDM_annotation.tsv
tral/examples/workflow/split_sequence_data/uniprot_PRDM_1.fasta
tral/examples/workflow/split_sequence_data/uniprot_PRDM_2.fasta
tral/hmm/__init__.py
tral/hmm/hmm.py
tral/hmm/hmm_io.py
tral/hmm/hmm_own_model.py
tral/hmm/hmm_viterbi.py
tral/hmm/test/hmm_io_test.py
tral/hmm/test/hmm_test.py
tral/hmm/test/hmm_viterbi_test.py
tral/repeat/__init__.py
tral/repeat/repeat.py
tral/repeat/repeat_align.py
tral/repeat/repeat_exon.py
tral/repeat/repeat_io.py
tral/repeat/repeat_pvalue.py
tral/repeat/repeat_score.py
tral/repeat/test/repeat_align_test.py
tral/repeat/test/repeat_score_test.py
tral/repeat/test/repeat_test.py
tral/repeat_list/__init__.py
tral/repeat_list/repeat_list.py
tral/repeat_list/repeat_list_io.py
tral/repeat_list/test/repeat_list_io_test.py
tral/repeat_list/test/repeat_list_test.py
tral/sequence/__init__.py
tral/sequence/repeat_detection_io.py
tral/sequence/repeat_detection_run.py
tral/sequence/sequence.py
tral/sequence/sequence_io.py
tral/sequence/test/repeat_detection_run_test.py
tral/sequence/test/sequence_io_test.py
tral/sequence/test/sequence_test.py
tral/test/.DS_Store
tral/test/HIV-1_388796.faa
tral/test/HIV-1_388796.pickle
tral/test/Kelch_1.hmm
tral/test/Kelch_2.hmm
tral/test/P51610.fasta
tral/test/dependencies_test.py
tral/test/test_workflow.py
tral/test/zf-CCHC.hmm
tral/tral_configuration/config.ini
tral/tral_configuration/logging.ini
tral/tral_configuration/spec.ini
tral/tral_configuration/data/hhrepid/dummyHMM.hmm
tral/tral_configuration/data/substitution_rate_matrices/lg.dat
tral/tral_configuration/data/substitution_rate_matrices/wag.dat