LICENSE
MANIFEST.in
README.md
requirements.txt
setup.cfg
setup.py
abutils/__init__.py
abutils/bin.py
abutils/cl.py
abutils/io.py
abutils/log.py
abutils/pl.py
abutils/pp.py
abutils/tl.py
abutils/version.py
abutils.egg-info/PKG-INFO
abutils.egg-info/SOURCES.txt
abutils.egg-info/dependency_links.txt
abutils.egg-info/requires.txt
abutils.egg-info/top_level.txt
abutils/binaries/cdhit_darwin_amd64
abutils/binaries/cdhit_darwin_arm64
abutils/binaries/cdhit_linux_amd64
abutils/binaries/fastp_darwin
abutils/binaries/fastp_linux
abutils/binaries/fasttree_darwin_amd64
abutils/binaries/fasttree_darwin_arm64
abutils/binaries/fasttree_linux_amd64
abutils/binaries/minimap2_darwin_arm64
abutils/binaries/minimap2_linux_amd64
abutils/binaries/mmseqs_darwin_amd64
abutils/binaries/mmseqs_darwin_arm64
abutils/binaries/mmseqs_linux_amd64
abutils/binaries/muscle3_darwin
abutils/binaries/muscle3_linux
abutils/binaries/muscle_darwin_amd64
abutils/binaries/muscle_darwin_arm64
abutils/binaries/muscle_linux_amd64
abutils/binaries/sickle_darwin_arm64
abutils/binaries/sickle_linux_amd64
abutils/binaries/vsearch_darwin_amd64
abutils/binaries/vsearch_darwin_arm64
abutils/binaries/vsearch_linux_amd64
abutils/binaries/mafft_darwin/mafft.bat
abutils/binaries/mafft_darwin/mafftdir/bin/mafft
abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle
abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap
abutils/binaries/mafft_darwin/mafftdir/libexec/countlen
abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client
abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast
abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast
abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7
abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre
abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr
abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl
abutils/binaries/mafft_darwin/mafftdir/libexec/filter
abutils/binaries/mafft_darwin/mafftdir/libexec/getlag
abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext
abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance
abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1
abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile
abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1
abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl
abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex
abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist
abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap
abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s
abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair
abutils/binaries/mafft_darwin/mafftdir/libexec/pairash
abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign
abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq
abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu
abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu
abutils/binaries/mafft_darwin/mafftdir/libexec/score
abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl
abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable
abutils/binaries/mafft_darwin/mafftdir/libexec/setcore
abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection
abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5
abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast
abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast
abutils/binaries/mafft_darwin/mafftdir/libexec/version
abutils/binaries/mafft_linux/mafft.bat
abutils/binaries/mafft_linux/mafftdir/bin/mafft
abutils/binaries/mafft_linux/mafftdir/libexec/addsingle
abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap
abutils/binaries/mafft_linux/mafftdir/libexec/countlen
abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments
abutils/binaries/mafft_linux/mafftdir/libexec/dash_client
abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa
abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast
abutils/binaries/mafft_linux/mafftdir/libexec/dndblast
abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7
abutils/binaries/mafft_linux/mafftdir/libexec/dndpre
abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr
abutils/binaries/mafft_linux/mafftdir/libexec/f2cl
abutils/binaries/mafft_linux/mafftdir/libexec/filter
abutils/binaries/mafft_linux/mafftdir/libexec/getlag
abutils/binaries/mafft_linux/mafftdir/libexec/hat3
abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext
abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance
abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1
abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile
abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1
abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl
abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex
abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist
abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap
abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s
abutils/binaries/mafft_linux/mafftdir/libexec/nodepair
abutils/binaries/mafft_linux/mafftdir/libexec/pairash
abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign
abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq
abutils/binaries/mafft_linux/mafftdir/libexec/replaceu
abutils/binaries/mafft_linux/mafftdir/libexec/restoreu
abutils/binaries/mafft_linux/mafftdir/libexec/score
abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl
abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable
abutils/binaries/mafft_linux/mafftdir/libexec/setcore
abutils/binaries/mafft_linux/mafftdir/libexec/setdirection
abutils/binaries/mafft_linux/mafftdir/libexec/sextet5
abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast
abutils/binaries/mafft_linux/mafftdir/libexec/tbfast
abutils/binaries/mafft_linux/mafftdir/libexec/version
abutils/core/__init__.py
abutils/core/lineage.py
abutils/core/pair.py
abutils/core/sequence.py
abutils/plots/__init__.py
abutils/plots/bar.py
abutils/plots/base.py
abutils/plots/data.py
abutils/plots/donut.py
abutils/plots/heatmap.py
abutils/plots/kde.py
abutils/plots/lineage.py
abutils/plots/ridge.py
abutils/plots/ring.py
abutils/plots/scatter.py
abutils/plots/summary.py
abutils/plots/utils.py
abutils/plots/mixins/__init__.py
abutils/plots/mixins/hue.py
abutils/plots/models/__init__.py
abutils/plots/models/data.py
abutils/preprocess/__init__.py
abutils/preprocess/preprocess.py
abutils/tests/__init__.py
abutils/tests/test_alignment.py
abutils/tests/test_clonify.py
abutils/tests/test_cloning.py
abutils/tests/test_cluster.py
abutils/tests/test_color.py
abutils/tests/test_io.py
abutils/tests/test_lineage.py
abutils/tests/test_pair.py
abutils/tests/test_phylo.py
abutils/tests/test_plots.py
abutils/tests/test_preprocessing.py
abutils/tests/test_sequence.py
abutils/tests/test_similarity.py
abutils/tests/test_utilities.py
abutils/tools/__init__.py
abutils/tools/alignment.py
abutils/tools/anarci.py
abutils/tools/clonify.py
abutils/tools/cloning.py
abutils/tools/cluster.py
abutils/tools/log.py
abutils/tools/phylo.py
abutils/tools/preprocessing.py
abutils/tools/search.py
abutils/tools/similarity.py
abutils/utils/__init__.py
abutils/utils/alignment.py
abutils/utils/circos.py
abutils/utils/click.py
abutils/utils/cluster.py
abutils/utils/codons.py
abutils/utils/color.py
abutils/utils/convert.py
abutils/utils/database.py
abutils/utils/decorators.py
abutils/utils/germlines.py
abutils/utils/jobs.py
abutils/utils/log.py
abutils/utils/mongodb.py
abutils/utils/path.py
abutils/utils/phylogeny.py
abutils/utils/progbar.py
abutils/utils/s3.py
abutils/utils/seqio.py
abutils/utils/ssh_tunnel.py
abutils/utils/utilities.py
abutils/utils/matrices/blosum62
abutils/utils/matrices/match1mismatch0
abutils/utils/matrices/match3mismatch2
docs/doc_requirements.txt