LICENSE.txt
MANIFEST.in
README.md
create_dbs.py
download_eggnog_data.py
emapper.py
hmm_mapper.py
hmm_server.py
hmm_worker.py
pyproject.toml
setup.cfg
setup.py
eggnog_mapper.egg-info/PKG-INFO
eggnog_mapper.egg-info/SOURCES.txt
eggnog_mapper.egg-info/dependency_links.txt
eggnog_mapper.egg-info/requires.txt
eggnog_mapper.egg-info/top_level.txt
eggnogmapper/__init__.py
eggnogmapper/common.py
eggnogmapper/emapper.py
eggnogmapper/emapperException.py
eggnogmapper/hmm_mapper.py
eggnogmapper/utils.py
eggnogmapper/version.py
eggnogmapper/annotation/__init__.py
eggnogmapper/annotation/annota.py
eggnogmapper/annotation/annota_mongo.py
eggnogmapper/annotation/annotator.py
eggnogmapper/annotation/annotator_worker.py
eggnogmapper/annotation/annotators.py
eggnogmapper/annotation/cache_annotator.py
eggnogmapper/annotation/db_sqlite.py
eggnogmapper/annotation/orthologs.py
eggnogmapper/annotation/output.py
eggnogmapper/annotation/ncbitaxa/__init__.py
eggnogmapper/annotation/ncbitaxa/ncbiquery.py
eggnogmapper/annotation/pfam/__init__.py
eggnogmapper/annotation/pfam/pfam.py
eggnogmapper/annotation/pfam/pfam_common.py
eggnogmapper/annotation/pfam/pfam_denovo.py
eggnogmapper/annotation/pfam/pfam_modes.py
eggnogmapper/annotation/pfam/pfam_scan.py
eggnogmapper/annotation/pfam/pfam_search.py
eggnogmapper/annotation/tax_scopes/__init__.py
eggnogmapper/annotation/tax_scopes/all
eggnogmapper/annotation/tax_scopes/all_broad
eggnogmapper/annotation/tax_scopes/all_narrow
eggnogmapper/annotation/tax_scopes/archaea
eggnogmapper/annotation/tax_scopes/auto
eggnogmapper/annotation/tax_scopes/auto_broad
eggnogmapper/annotation/tax_scopes/bacteria
eggnogmapper/annotation/tax_scopes/bacteria_broad
eggnogmapper/annotation/tax_scopes/eukaryota
eggnogmapper/annotation/tax_scopes/eukaryota_broad
eggnogmapper/annotation/tax_scopes/prokaryota_broad
eggnogmapper/annotation/tax_scopes/tax_scopes.py
eggnogmapper/annotation/tax_scopes/vars.py
eggnogmapper/bin/__init__.py
eggnogmapper/bin/alimask
eggnogmapper/bin/diamond
eggnogmapper/bin/esl-afetch
eggnogmapper/bin/esl-alimanip
eggnogmapper/bin/esl-alimap
eggnogmapper/bin/esl-alimask
eggnogmapper/bin/esl-alimerge
eggnogmapper/bin/esl-alipid
eggnogmapper/bin/esl-alistat
eggnogmapper/bin/esl-cluster
eggnogmapper/bin/esl-compalign
eggnogmapper/bin/esl-compstruct
eggnogmapper/bin/esl-construct
eggnogmapper/bin/esl-histplot
eggnogmapper/bin/esl-mask
eggnogmapper/bin/esl-reformat
eggnogmapper/bin/esl-selectn
eggnogmapper/bin/esl-seqrange
eggnogmapper/bin/esl-seqstat
eggnogmapper/bin/esl-sfetch
eggnogmapper/bin/esl-shuffle
eggnogmapper/bin/esl-ssdraw
eggnogmapper/bin/esl-stranslate
eggnogmapper/bin/esl-weight
eggnogmapper/bin/hmmalign
eggnogmapper/bin/hmmbuild
eggnogmapper/bin/hmmc2
eggnogmapper/bin/hmmconvert
eggnogmapper/bin/hmmemit
eggnogmapper/bin/hmmerfm-exactmatch
eggnogmapper/bin/hmmfetch
eggnogmapper/bin/hmmlogo
eggnogmapper/bin/hmmpgmd
eggnogmapper/bin/hmmpress
eggnogmapper/bin/hmmscan
eggnogmapper/bin/hmmsearch
eggnogmapper/bin/hmmsim
eggnogmapper/bin/hmmstat
eggnogmapper/bin/jackhmmer
eggnogmapper/bin/makehmmerdb
eggnogmapper/bin/mmseqs
eggnogmapper/bin/nhmmer
eggnogmapper/bin/nhmmscan
eggnogmapper/bin/phmmer
eggnogmapper/bin/prodigal
eggnogmapper/bin/prodigal.linux
eggnogmapper/deco/__init__.py
eggnogmapper/deco/decoration.py
eggnogmapper/genepred/__init__.py
eggnogmapper/genepred/genepred_modes.py
eggnogmapper/genepred/prodigal.py
eggnogmapper/genepred/util.py
eggnogmapper/search/__init__.py
eggnogmapper/search/hits_io.py
eggnogmapper/search/search_modes.py
eggnogmapper/search/diamond/__init__.py
eggnogmapper/search/diamond/diamond.py
eggnogmapper/search/hmmer/__init__.py
eggnogmapper/search/hmmer/hmm_qtype_test_data.py
eggnogmapper/search/hmmer/hmmer.py
eggnogmapper/search/hmmer/hmmer_idmap.py
eggnogmapper/search/hmmer/hmmer_overlaps.py
eggnogmapper/search/hmmer/hmmer_search.py
eggnogmapper/search/hmmer/hmmer_search_hmmpgmd.py
eggnogmapper/search/hmmer/hmmer_seqio.py
eggnogmapper/search/hmmer/hmmer_server.py
eggnogmapper/search/hmmer/hmmer_setup.py
eggnogmapper/search/mmseqs/__init__.py
eggnogmapper/search/mmseqs/mmseqs.py
tests/__init__.py
tests/integration/__init__.py
tests/integration/common.py
tests/integration/test.py
tests/integration/test_hmm_mapper.py
tests/unit/__init__.py
tests/unit/tests_search_diamond.py