LICENSE.txt
MANIFEST.in
README.md
pyproject.toml
setup.py
pcalf/.DS_Store
pcalf/__init__.py
pcalf.egg-info/PKG-INFO
pcalf.egg-info/SOURCES.txt
pcalf.egg-info/dependency_links.txt
pcalf.egg-info/not-zip-safe
pcalf.egg-info/requires.txt
pcalf.egg-info/top_level.txt
pcalf/__pycache__/__init__.cpython-39.pyc
pcalf/core/PcalfDB.py
pcalf/core/PcalfSnake.py
pcalf/core/__init__.py
pcalf/core/biohmm.py
pcalf/core/bioseq.py
pcalf/core/log.py
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pcalf/core/search.py
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pcalf/datas/Gly1.hmm
pcalf/datas/Gly1.msa.fa
pcalf/datas/Gly2.hmm
pcalf/datas/Gly2.msa.fa
pcalf/datas/Gly3.hmm
pcalf/datas/Gly3.msa.fa
pcalf/datas/GlyX3.hmm
pcalf/datas/GlyX3.msa.fa
pcalf/datas/__init__.py
pcalf/datas/accession.txt
pcalf/datas/all.hmm
pcalf/datas/calcyanin.fasta
pcalf/datas/nterdb.fasta
pcalf/datas/nterdb.ref.tsv
pcalf/datas/nterdb.tsv
pcalf/datas/__pycache__/__init__.cpython-39.pyc
pcalf/pcalf.egg-info/PKG-INFO
pcalf/pcalf.egg-info/SOURCES.txt
pcalf/pcalf.egg-info/dependency_links.txt
pcalf/pcalf.egg-info/not-zip-safe
pcalf/pcalf.egg-info/requires.txt
pcalf/pcalf.egg-info/top_level.txt
pcalf/report/Report.ipynb
pcalf/report/__init__.py
pcalf/report/pcalf.svg
pcalf/report/render.py
pcalf/report/template.css
pcalf/report/template.html
pcalf/report/template.js
pcalf/report/.ipynb_checkpoints/Report-checkpoint.ipynb
pcalf/report/__pycache__/__init__.cpython-39.pyc
pcalf/report/__pycache__/render.cpython-39.pyc
pcalf/workflow/.DS_Store
pcalf/workflow/.ipynb_checkpoints/Report-checkpoint.ipynb
pcalf/workflow/annotate/.DS_Store
pcalf/workflow/annotate/Snakefile
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pcalf/workflow/annotate/__pycache__/__init__.cpython-39.pyc
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pcalf/workflow/annotate/config/config.yaml
pcalf/workflow/annotate/envs/.DS_Store
pcalf/workflow/annotate/envs/biopython_1.79.yaml
pcalf/workflow/annotate/envs/checkm.yaml
pcalf/workflow/annotate/envs/gtdbtk_2.1.yaml
pcalf/workflow/annotate/envs/ncbi_dataset_14.14.0.yaml
pcalf/workflow/annotate/rules/.DS_Store
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pcalf/workflow/annotate/rules/gtdbtk.smk
pcalf/workflow/annotate/rules/ncbi_metadatas.smk
pcalf/workflow/annotate/rules/pcalf.smk
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pcalf/workflow/annotate/scripts/ncbi_metadatas.py
pcalf/workflow/datasets/.DS_Store
pcalf/workflow/datasets/Snakefile
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pcalf/workflow/datasets/__pycache__/__init__.cpython-39.pyc
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pcalf/workflow/datasets/config/config.yaml
pcalf/workflow/datasets/envs/.DS_Store
pcalf/workflow/datasets/envs/biopython_1.79.yaml
pcalf/workflow/datasets/envs/ncbi_dataset_14.14.0.yaml
pcalf/workflow/datasets/envs/ngd.yaml
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pcalf/workflow/datasets/envs/seqkit.yaml
pcalf/workflow/datasets/rules/.DS_Store
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pcalf/workflow/datasets/rules/fetch.smk
pcalf/workflow/datasets/rules/translate.smk
pcalf/workflow/datasets/scripts/.DS_Store
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pcalf/workflow/datasets/scripts/fallback.py
pcalf/workflow/datasets/scripts/filter_accession_on_taxid.py
pcalf/workflow/datasets/scripts/get_ncbi_reports.py
pcalf/workflow/datasets/scripts/gimme_taxa.py
pcalf/workflow/datasets/scripts/log.py
pcalf/workflow/datasets/scripts/taxid_children.py
pcalf/workflow/datasets/scripts/utils.py
scripts/pcalf
scripts/pcalf-annotate-workflow
scripts/pcalf-datasets-workflow
scripts/pcalf-report