MANIFEST.in
README.md
setup.cfg
setup.py
BioExt/__init__.py
BioExt/align/__init__.py
BioExt/align/_align.c
BioExt/align/_align.cpython-311-darwin.so
BioExt/align/_align.cpython-312-darwin.so
BioExt/align/_align.cpython-39-darwin.so
BioExt/align/_align.pyx
BioExt/align/alignment.c
BioExt/align/alignment.h
BioExt/align/__pycache__/__init__.cpython-311.pyc
BioExt/align/__pycache__/__init__.cpython-39.pyc
BioExt/args/__init__.py
BioExt/collections/__init__.py
BioExt/collections/_counter.py
BioExt/collections/_ordereddict.py
BioExt/data/fonts/ttf/Roboto-Black.ttf
BioExt/data/fonts/ttf/Roboto-BlackItalic.ttf
BioExt/data/fonts/ttf/Roboto-Bold.ttf
BioExt/data/fonts/ttf/Roboto-BoldCondensed.ttf
BioExt/data/fonts/ttf/Roboto-BoldCondensedItalic.ttf
BioExt/data/fonts/ttf/Roboto-BoldItalic.ttf
BioExt/data/fonts/ttf/Roboto-Condensed.ttf
BioExt/data/fonts/ttf/Roboto-CondensedItalic.ttf
BioExt/data/fonts/ttf/Roboto-Italic.ttf
BioExt/data/fonts/ttf/Roboto-Light.ttf
BioExt/data/fonts/ttf/Roboto-LightItalic.ttf
BioExt/data/fonts/ttf/Roboto-Medium.ttf
BioExt/data/fonts/ttf/Roboto-MediumItalic.ttf
BioExt/data/fonts/ttf/Roboto-Regular.ttf
BioExt/data/fonts/ttf/Roboto-Thin.ttf
BioExt/data/fonts/ttf/Roboto-ThinItalic.ttf
BioExt/data/references/cov2/CoV2-E.fa
BioExt/data/references/cov2/CoV2-M.fa
BioExt/data/references/cov2/CoV2-N.fa
BioExt/data/references/cov2/CoV2-ORF10.fa
BioExt/data/references/cov2/CoV2-ORF1a.fa
BioExt/data/references/cov2/CoV2-ORF1b.fa
BioExt/data/references/cov2/CoV2-ORF3a.fa
BioExt/data/references/cov2/CoV2-ORF5.fa
BioExt/data/references/cov2/CoV2-ORF6.fa
BioExt/data/references/cov2/CoV2-ORF7a.fa
BioExt/data/references/cov2/CoV2-ORF7b.fa
BioExt/data/references/cov2/CoV2-ORF8.fa
BioExt/data/references/cov2/CoV2-RdRp.fa
BioExt/data/references/cov2/CoV2-S.fa
BioExt/data/references/cov2/CoV2-endornase.fa
BioExt/data/references/cov2/CoV2-exonuclease.fa
BioExt/data/references/cov2/CoV2-helicase.fa
BioExt/data/references/cov2/CoV2-leader.fa
BioExt/data/references/cov2/CoV2-methyltransferase.fa
BioExt/data/references/cov2/CoV2-nsp10.fa
BioExt/data/references/cov2/CoV2-nsp2.fa
BioExt/data/references/cov2/CoV2-nsp3.fa
BioExt/data/references/cov2/CoV2-nsp4.fa
BioExt/data/references/cov2/CoV2-nsp6.fa
BioExt/data/references/cov2/CoV2-nsp7.fa
BioExt/data/references/cov2/CoV2-nsp8.fa
BioExt/data/references/cov2/CoV2-nsp9.fa
BioExt/data/references/cov2/CoV2-threeC.fa
BioExt/data/references/hxb2/HXB2_env.gb
BioExt/data/references/hxb2/HXB2_gag.fa
BioExt/data/references/hxb2/HXB2_int.fa
BioExt/data/references/hxb2/HXB2_nef.fa
BioExt/data/references/hxb2/HXB2_pol.fa
BioExt/data/references/hxb2/HXB2_pr.fa
BioExt/data/references/hxb2/HXB2_prrt.fa
BioExt/data/references/hxb2/HXB2_rev.fa
BioExt/data/references/hxb2/HXB2_rt.fa
BioExt/data/references/hxb2/HXB2_tat.fa
BioExt/data/references/hxb2/HXB2_vif.fa
BioExt/data/references/hxb2/HXB2_vpr.fa
BioExt/data/references/hxb2/HXB2_vpu.fa
BioExt/data/references/nl4-3/NL4_3_env.fna
BioExt/data/references/nl4-3/NL4_3_gag.fna
BioExt/data/references/nl4-3/NL4_3_nef.fna
BioExt/data/references/nl4-3/NL4_3_pol.fna
BioExt/data/references/nl4-3/NL4_3_prrt.fna
BioExt/data/references/nl4-3/NL4_3_rev.fna
BioExt/data/references/nl4-3/NL4_3_tat.fna
BioExt/data/references/nl4-3/NL4_3_vif.fna
BioExt/data/references/nl4-3/NL4_3_vpr.fna
BioExt/data/references/nl4-3/NL4_3_vpu.fna
BioExt/data/scorematrices/BLOSUM62.txt
BioExt/data/scorematrices/HIV_BETWEEN_F.txt
BioExt/data/scorematrices/PAM200.txt
BioExt/data/scorematrices/PAM250.txt
BioExt/errorize/__init__.py
BioExt/freetype/__init__.py
BioExt/freetype/ft_errors.py
BioExt/freetype/ft_structs.py
BioExt/freetype/ft_types.py
BioExt/freetype/ft_enums/__init__.py
BioExt/freetype/ft_enums/ft_encodings.py
BioExt/freetype/ft_enums/ft_face_flags.py
BioExt/freetype/ft_enums/ft_fstypes.py
BioExt/freetype/ft_enums/ft_glyph_bbox_modes.py
BioExt/freetype/ft_enums/ft_glyph_formats.py
BioExt/freetype/ft_enums/ft_kerning_modes.py
BioExt/freetype/ft_enums/ft_lcd_filters.py
BioExt/freetype/ft_enums/ft_load_flags.py
BioExt/freetype/ft_enums/ft_load_targets.py
BioExt/freetype/ft_enums/ft_open_modes.py
BioExt/freetype/ft_enums/ft_outline_flags.py
BioExt/freetype/ft_enums/ft_pixel_modes.py
BioExt/freetype/ft_enums/ft_render_modes.py
BioExt/freetype/ft_enums/ft_stroker_borders.py
BioExt/freetype/ft_enums/ft_stroker_linecaps.py
BioExt/freetype/ft_enums/ft_stroker_linejoins.py
BioExt/freetype/ft_enums/ft_style_flags.py
BioExt/freetype/ft_enums/tt_adobe_ids.py
BioExt/freetype/ft_enums/tt_apple_ids.py
BioExt/freetype/ft_enums/tt_mac_ids.py
BioExt/freetype/ft_enums/tt_mac_langids.py
BioExt/freetype/ft_enums/tt_ms_ids.py
BioExt/freetype/ft_enums/tt_ms_langids.py
BioExt/freetype/ft_enums/tt_name_ids.py
BioExt/freetype/ft_enums/tt_platforms.py
BioExt/io/_SamBamIO.py
BioExt/io/__init__.py
BioExt/io/BamIO/__init__.py
BioExt/io/LazyAlignIO/__init__.py
BioExt/io/SamIO/__init__.py
BioExt/merge/__init__.py
BioExt/merge/_merge.c
BioExt/merge/_merge.cpython-311-darwin.so
BioExt/merge/_merge.cpython-312-darwin.so
BioExt/merge/_merge.cpython-39-darwin.so
BioExt/merge/_merge.pyx
BioExt/merge/merge.cpp
BioExt/merge/merge.h
BioExt/merge/__pycache__/__init__.cpython-39.pyc
BioExt/misc/__init__.py
BioExt/ndarray/__init__.py
BioExt/optimize/__init__.py
BioExt/optimize/_linesearch.py
BioExt/orflist/__init__.py
BioExt/phylo/__init__.py
BioExt/rateclass/__init__.py
BioExt/rateclass/_rateclass.cpp
BioExt/rateclass/_rateclass.cpython-311-darwin.so
BioExt/rateclass/_rateclass.cpython-312-darwin.so
BioExt/rateclass/_rateclass.cpython-39-darwin.so
BioExt/rateclass/_rateclass.pyx
BioExt/rateclass/math.hpp
BioExt/rateclass/rateclass.cpp
BioExt/rateclass/rateclass.hpp
BioExt/rateclass/util.hpp
BioExt/rateclass/__pycache__/__init__.cpython-39.pyc
BioExt/references/__init__.py
BioExt/references/_factory.py
BioExt/references/_lazyseq.py
BioExt/scorematrices/__init__.py
BioExt/scorematrices/_factory.py
BioExt/scorematrices/_lazyscorematrix.py
BioExt/scorematrices/_scorematrix.py
BioExt/stats/__init__.py
BioExt/tn93/__init__.py
BioExt/tn93/_tn93.c
BioExt/tn93/_tn93.cpython-311-darwin.so
BioExt/tn93/_tn93.cpython-312-darwin.so
BioExt/tn93/_tn93.cpython-39-darwin.so
BioExt/tn93/_tn93.html
BioExt/tn93/_tn93.pyx
BioExt/tn93/tn93.c
BioExt/tn93/tn93.h
BioExt/tn93/__pycache__/__init__.cpython-311.pyc
BioExt/tn93/__pycache__/__init__.cpython-39.pyc
BioExt/uds/__init__.py
BioExt/untranslate/__init__.py
bioext.egg-info/PKG-INFO
bioext.egg-info/SOURCES.txt
bioext.egg-info/dependency_links.txt
bioext.egg-info/requires.txt
bioext.egg-info/top_level.txt
scripts/bam2fna
scripts/bam2msa
scripts/bamclip
scripts/bealign
scripts/clipedge
scripts/msa2bam
scripts/seqmerge
scripts/translate