LICENSE.md
MANIFEST.in
README.md
pyproject.toml
setup.cfg
setup.py
ab12phylo/__init__.py
ab12phylo/gtk_app.py
ab12phylo/gtk_base.py
ab12phylo/gtk_blast.py
ab12phylo/gtk_gbl.py
ab12phylo/gtk_io.py
ab12phylo/gtk_ml.py
ab12phylo/gtk_msa.py
ab12phylo/gtk_proj.py
ab12phylo/gtk_qal.py
ab12phylo/gtk_rgx.py
ab12phylo/gtk_tree.py
ab12phylo/repo.py
ab12phylo/test_data.zip
ab12phylo.egg-info/PKG-INFO
ab12phylo.egg-info/SOURCES.txt
ab12phylo.egg-info/dependency_links.txt
ab12phylo.egg-info/entry_points.txt
ab12phylo.egg-info/requires.txt
ab12phylo.egg-info/top_level.txt
ab12phylo.egg-info/zip-safe
ab12phylo/files/align.png
ab12phylo/files/anno.png
ab12phylo/files/axis.png
ab12phylo/files/circ.png
ab12phylo/files/favi.ico
ab12phylo/files/favi.png
ab12phylo/files/favi.svg
ab12phylo/files/fbp.png
ab12phylo/files/flip.png
ab12phylo/files/floppy.png
ab12phylo/files/gui.glade
ab12phylo/files/html.png
ab12phylo/files/mindist.png
ab12phylo/files/msa.png
ab12phylo/files/nwk.png
ab12phylo/files/pdf.png
ab12phylo/files/png.png
ab12phylo/files/rect.png
ab12phylo/files/screen_04.png
ab12phylo/files/space.png
ab12phylo/files/spec.png
ab12phylo/files/supp.png
ab12phylo/files/svg.png
ab12phylo/files/tbe.png
ab12phylo/files/unro.png
ab12phylo_cmd/__init__.py
ab12phylo_cmd/blast.py
ab12phylo_cmd/cli.py
ab12phylo_cmd/filter.py
ab12phylo_cmd/i_o.py
ab12phylo_cmd/main.py
ab12phylo_cmd/msa.py
ab12phylo_cmd/phylo.py
ab12phylo_cmd/raxml.py
ab12phylo_cmd/template.jinja
ab12phylo_cmd/cgi-bin/ab12phylo.py
ab12phylo_cmd/cgi-bin/favicon.ico
ab12phylo_cmd/cgi-bin/favicon.png
ab12phylo_cmd/config/config.yaml
ab12phylo_cmd/config/test_config.yaml
ab12phylo_cmd/test_data/ITS1F.fasta
ab12phylo_cmd/test_data/file_set
ab12phylo_cmd/test_data/sample_set
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_01_ITS1F_A01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_01_ITS1F_A01_1.copy.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_01_ITS1F_A01_1.copy2.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_01_ITS1F_A01_1.damaged.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_02_ITS1F_A01_1.rev.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_02_ITS1F_B01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_02_ITS1F_B01_1.rev.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_04_ITS1F_D01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_06_ITS1F_F01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl1_07_ITS1F_G01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl2_13_ITS1F_E02_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl2_1_ITS1F_A01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl2_5_ITS1F_E01_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl2_9_ITS1F_A02_1.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl6_50_ITS1F_B07_031_1.low-quality.ab1
ab12phylo_cmd/test_data/ABI_trace_files/FN_pl6_52_ITS1F_D07_029_1.tricky.ab1
ab12phylo_cmd/test_data/csvs/dna_extract_96wellplates_box1B.csv
ab12phylo_cmd/test_data/csvs/dna_extract_96wellplates_box2B.csv
ab12phylo_cmd/test_data/csvs/dna_extract_96wellplates_box6B.csv
ab12phylo_cmd/tools/Gblocks_0.91b/Gblocks
ab12phylo_cmd/tools/Gblocks_0.91b/nad3.pir
ab12phylo_cmd/tools/Gblocks_0.91b/paths
ab12phylo_cmd/tools/Gblocks_0.91b/more_alignments/cox2.pir
ab12phylo_cmd/tools/Gblocks_0.91b/more_alignments/cytb.pir
ab12phylo_cmd/tools/Gblocks_0.91b/more_alignments/nad3.pir
ab12phylo_cmd/tools/Gblocks_0.91b/more_alignments/nad5.pir
ab12phylo_cmd/tools/MSA_clients/clustalo.py
ab12phylo_cmd/tools/MSA_clients/mafft.py
ab12phylo_cmd/tools/MSA_clients/muscle.py
ab12phylo_cmd/tools/MSA_clients/tcoffee.py
ab12phylo_cmd/tools/mview-1.67/CHANGES
ab12phylo_cmd/tools/mview-1.67/LICENSE.md
ab12phylo_cmd/tools/mview-1.67/Makefile.PL
ab12phylo_cmd/tools/mview-1.67/README.md
ab12phylo_cmd/tools/mview-1.67/README_perl.md
ab12phylo_cmd/tools/mview-1.67/README_unix.md
ab12phylo_cmd/tools/mview-1.67/README_windows.md
ab12phylo_cmd/tools/mview-1.67/install.pl
ab12phylo_cmd/tools/mview-1.67/plain.dat
ab12phylo_cmd/tools/mview-1.67/bin/mview
ab12phylo_cmd/tools/mview-1.67/bin/mview_bak
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Convert.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/GroupMap.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Manager.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/SRS.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Alignment.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/ColorMixin.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Consensus.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Conservation.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Row.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Ruler.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Sequence.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Align/Special.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Align.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Base.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Row.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/RowInfoMixin.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Scheduler.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Search.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/BLAST.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/BLAST0.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/BLAST1.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/BLAST2.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/CLUSTAL.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/FASTA.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/FASTA1.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/FASTA2.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/FASTA3.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/FASTA3X.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/HSSP.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/JNETZ.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/MAF.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/MIPS.pm
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ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/MULTAS.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Build/Format/PIR.pm
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ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Color/ColorMap.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Color/Palette.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Display.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Panel.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Ruler.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Sequence.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Track.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Out/HTML.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Display/Out/Text.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Option/Arguments.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Option/Options.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Option/Parameters.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Option/Parser.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Option/Types.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Sequence/Base.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Sequence/Forward.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/MView/Sequence/Reverse.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Block.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/BlockKeeper.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/ReadFile.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/ReadText.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Record.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Scanner.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Stream.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Strings.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/BLAST.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/BLAST1.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/BLAST2.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/BLAST2_OF7.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/CLUSTAL.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/FASTA.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/FASTA1.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/FASTA2.pm
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ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/FASTA3.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/FASTA3X.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/HSSP.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/JNETZ.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/MAF.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/MIPS.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/MSF.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/MULTAS.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/PIR.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/Pearson.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/Plain.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/BLAST1/blastn.pm
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ab12phylo_cmd/tools/mview-1.67/lib/Bio/Parse/Format/FASTA1/fasta.pm
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ab12phylo_cmd/tools/mview-1.67/lib/Bio/Util/File.pm
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ab12phylo_cmd/tools/mview-1.67/lib/Bio/Util/Object.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Util/Regexp.pm
ab12phylo_cmd/tools/mview-1.67/lib/Bio/Util/System.pm
ab12phylo_cmd/tools/raxml-ng-static/INSTALL.txt
ab12phylo_cmd/tools/raxml-ng-static/LICENSE.txt
ab12phylo_cmd/tools/raxml-ng-static/README.md
ab12phylo_cmd/tools/raxml-ng-static/raxml-ng
ab12phylo_cmd/tools/raxml-ng-static/data/example.fas
ab12phylo_cmd/tools/raxml-ng-static/data/example.tree
ab12phylo_cmd/tools/raxml-ng-static/data/test.fa