MANIFEST.in
README.rst
setup.py
strainest/__init__.py
strainest/mummer.py
strainest.egg-info/PKG-INFO
strainest.egg-info/SOURCES.txt
strainest.egg-info/dependency_links.txt
strainest.egg-info/entry_points.txt
strainest.egg-info/requires.txt
strainest.egg-info/top_level.txt
strainest/MUMmer323/ACKNOWLEDGEMENTS
strainest/MUMmer323/COPYRIGHT
strainest/MUMmer323/ChangeLog
strainest/MUMmer323/INSTALL
strainest/MUMmer323/LICENSE
strainest/MUMmer323/Makefile
strainest/MUMmer323/README
strainest/MUMmer323/aux_bin/README
strainest/MUMmer323/docs/Makefile
strainest/MUMmer323/docs/README
strainest/MUMmer323/docs/differences.README
strainest/MUMmer323/docs/dnadiff.README
strainest/MUMmer323/docs/mapview.README
strainest/MUMmer323/docs/maxmat3man.tex
strainest/MUMmer323/docs/maxmat3src.pdf
strainest/MUMmer323/docs/nucmer.README
strainest/MUMmer323/docs/optionman.sty
strainest/MUMmer323/docs/promer.README
strainest/MUMmer323/docs/run-mummer1.README
strainest/MUMmer323/docs/run-mummer3.README
strainest/MUMmer323/docs/skaff.sty
strainest/MUMmer323/docs/web/MUMmer.pdf
strainest/MUMmer323/docs/web/MUMmer2.pdf
strainest/MUMmer323/docs/web/MUMmer3.pdf
strainest/MUMmer323/docs/web/XFiles.pdf
strainest/MUMmer323/docs/web/applications.html
strainest/MUMmer323/docs/web/compare.html
strainest/MUMmer323/docs/web/index.html
strainest/MUMmer323/docs/web/logo.gif
strainest/MUMmer323/docs/web/mummer-help.gif
strainest/MUMmer323/docs/web/mummer-users.gif
strainest/MUMmer323/docs/web/examples/dotplot.gif
strainest/MUMmer323/docs/web/examples/examples_logo.gif
strainest/MUMmer323/docs/web/examples/index.html
strainest/MUMmer323/docs/web/examples/mapplot.gif
strainest/MUMmer323/docs/web/examples/mapview_fig.jpg
strainest/MUMmer323/docs/web/examples/mummer_ps.jpg
strainest/MUMmer323/docs/web/examples/data/B_anthracis_Mslice.fasta
strainest/MUMmer323/docs/web/examples/data/B_anthracis_contigs.fasta
strainest/MUMmer323/docs/web/examples/data/D_melanogaster_2Rslice.cds
strainest/MUMmer323/docs/web/examples/data/D_melanogaster_2Rslice.fasta
strainest/MUMmer323/docs/web/examples/data/D_melanogaster_2Rslice.utr
strainest/MUMmer323/docs/web/examples/data/D_pseudoobscura_contigs.fasta
strainest/MUMmer323/docs/web/examples/data/H_pylori26695_Bslice.fasta
strainest/MUMmer323/docs/web/examples/data/H_pylori26695_Eslice.fasta
strainest/MUMmer323/docs/web/examples/data/H_pyloriJ99_Bslice.fasta
strainest/MUMmer323/docs/web/examples/data/H_pyloriJ99_Eslice.fasta
strainest/MUMmer323/docs/web/examples/data/README
strainest/MUMmer323/docs/web/examples/data/mapview_0.fig
strainest/MUMmer323/docs/web/examples/data/mapview_0.pdf
strainest/MUMmer323/docs/web/examples/data/mummer.fplot
strainest/MUMmer323/docs/web/examples/data/mummer.gp
strainest/MUMmer323/docs/web/examples/data/mummer.mums
strainest/MUMmer323/docs/web/examples/data/mummer.ps
strainest/MUMmer323/docs/web/examples/data/mummer.rplot
strainest/MUMmer323/docs/web/examples/data/mummer1.align
strainest/MUMmer323/docs/web/examples/data/mummer1.errorsgaps
strainest/MUMmer323/docs/web/examples/data/mummer1.gaps
strainest/MUMmer323/docs/web/examples/data/mummer1.out
strainest/MUMmer323/docs/web/examples/data/mummer3.align
strainest/MUMmer323/docs/web/examples/data/mummer3.errorsgaps
strainest/MUMmer323/docs/web/examples/data/mummer3.gaps
strainest/MUMmer323/docs/web/examples/data/mummer3.out
strainest/MUMmer323/docs/web/examples/data/nucmer.cluster
strainest/MUMmer323/docs/web/examples/data/nucmer.coords
strainest/MUMmer323/docs/web/examples/data/nucmer.delta
strainest/MUMmer323/docs/web/examples/data/nucmer.snps
strainest/MUMmer323/docs/web/examples/data/nucmer.tiling
strainest/MUMmer323/docs/web/examples/data/promer.aligns
strainest/MUMmer323/docs/web/examples/data/promer.cluster
strainest/MUMmer323/docs/web/examples/data/promer.coords
strainest/MUMmer323/docs/web/examples/data/promer.delta
strainest/MUMmer323/docs/web/manual/AlignmentTypes.odg
strainest/MUMmer323/docs/web/manual/AlignmentTypes.pdf
strainest/MUMmer323/docs/web/manual/covplot.gif
strainest/MUMmer323/docs/web/manual/dotplot.gif
strainest/MUMmer323/docs/web/manual/gaps.gif
strainest/MUMmer323/docs/web/manual/index.html
strainest/MUMmer323/docs/web/manual/manual_logo.gif
strainest/MUMmer323/docs/web/manual/mapplot.gif
strainest/MUMmer323/docs/web/manual/mgaps.gif
strainest/MUMmer323/docs/web/manual/multiplota.gif
strainest/MUMmer323/docs/web/manual/multiplotb.gif
strainest/MUMmer323/docs/web/manual/nuc_proex.gif
strainest/MUMmer323/docs/web/manual/nucex.gif
strainest/MUMmer323/docs/web/manual/osi.gif
strainest/MUMmer323/docs/web/manual/pro_proex.gif
strainest/MUMmer323/scripts/Foundation.pm
strainest/MUMmer323/scripts/Makefile
strainest/MUMmer323/scripts/dnadiff.pl
strainest/MUMmer323/scripts/exact-tandems.csh
strainest/MUMmer323/scripts/mapview.pl
strainest/MUMmer323/scripts/mummerplot.pl
strainest/MUMmer323/scripts/nucmer.pl
strainest/MUMmer323/scripts/nucmer2xfig.pl
strainest/MUMmer323/scripts/promer.pl
strainest/MUMmer323/scripts/run-mummer1.csh
strainest/MUMmer323/scripts/run-mummer3.csh
strainest/MUMmer323/scripts/tandem-repeat.awk
strainest/MUMmer323/src/kurtz/Makedef
strainest/MUMmer323/src/kurtz/Makefile
strainest/MUMmer323/src/kurtz/README
strainest/MUMmer323/src/kurtz/Splintoptions
strainest/MUMmer323/src/kurtz/libbasedir/Cuthere.awk
strainest/MUMmer323/src/kurtz/libbasedir/Dependencies.mf
strainest/MUMmer323/src/kurtz/libbasedir/Excludemulti
strainest/MUMmer323/src/kurtz/libbasedir/Filegoals.mf
strainest/MUMmer323/src/kurtz/libbasedir/Filelists.mf
strainest/MUMmer323/src/kurtz/libbasedir/Importfiles
strainest/MUMmer323/src/kurtz/libbasedir/Makefile
strainest/MUMmer323/src/kurtz/libbasedir/Mkprotodef.sh
strainest/MUMmer323/src/kurtz/libbasedir/Mksrc.sh
strainest/MUMmer323/src/kurtz/libbasedir/README
strainest/MUMmer323/src/kurtz/libbasedir/args.h
strainest/MUMmer323/src/kurtz/libbasedir/arraydef.h
strainest/MUMmer323/src/kurtz/libbasedir/chardef.h
strainest/MUMmer323/src/kurtz/libbasedir/cleanMUMcand.c
strainest/MUMmer323/src/kurtz/libbasedir/clock.c
strainest/MUMmer323/src/kurtz/libbasedir/debug.c
strainest/MUMmer323/src/kurtz/libbasedir/debugdef.h
strainest/MUMmer323/src/kurtz/libbasedir/errordef.h
strainest/MUMmer323/src/kurtz/libbasedir/fopen.h
strainest/MUMmer323/src/kurtz/libbasedir/intbits.h
strainest/MUMmer323/src/kurtz/libbasedir/mapfile.c
strainest/MUMmer323/src/kurtz/libbasedir/megabytes.h
strainest/MUMmer323/src/kurtz/libbasedir/minmax.h
strainest/MUMmer323/src/kurtz/libbasedir/multidef.h
strainest/MUMmer323/src/kurtz/libbasedir/multiseq.c
strainest/MUMmer323/src/kurtz/libbasedir/mumcand.h
strainest/MUMmer323/src/kurtz/libbasedir/optdesc.h
strainest/MUMmer323/src/kurtz/libbasedir/procopt.c
strainest/MUMmer323/src/kurtz/libbasedir/protodef.h
strainest/MUMmer323/src/kurtz/libbasedir/safescpy.c
strainest/MUMmer323/src/kurtz/libbasedir/seterror.c
strainest/MUMmer323/src/kurtz/libbasedir/space.c
strainest/MUMmer323/src/kurtz/libbasedir/spacedef.h
strainest/MUMmer323/src/kurtz/libbasedir/types.h
strainest/MUMmer323/src/kurtz/libbasedir/visible.h
strainest/MUMmer323/src/kurtz/mm3src/Dependencies.mf
strainest/MUMmer323/src/kurtz/mm3src/Filegoals.mf
strainest/MUMmer323/src/kurtz/mm3src/Makefile
strainest/MUMmer323/src/kurtz/mm3src/README
strainest/MUMmer323/src/kurtz/mm3src/findmaxmat.c
strainest/MUMmer323/src/kurtz/mm3src/findmumcand.c
strainest/MUMmer323/src/kurtz/mm3src/maxmat3.c
strainest/MUMmer323/src/kurtz/mm3src/maxmatdef.h
strainest/MUMmer323/src/kurtz/mm3src/maxmatinp.c
strainest/MUMmer323/src/kurtz/mm3src/maxmatopt.c
strainest/MUMmer323/src/kurtz/mm3src/procmaxmat.c
strainest/MUMmer323/src/kurtz/streesrc/Dependencies.mf
strainest/MUMmer323/src/kurtz/streesrc/Filegoals.mf
strainest/MUMmer323/src/kurtz/streesrc/Macronames
strainest/MUMmer323/src/kurtz/streesrc/Makefile
strainest/MUMmer323/src/kurtz/streesrc/Mkstreeproto.sh
strainest/MUMmer323/src/kurtz/streesrc/access.c
strainest/MUMmer323/src/kurtz/streesrc/addleafcount.c
strainest/MUMmer323/src/kurtz/streesrc/construct.c
strainest/MUMmer323/src/kurtz/streesrc/construct.gen
strainest/MUMmer323/src/kurtz/streesrc/depthtab.c
strainest/MUMmer323/src/kurtz/streesrc/dfs.c
strainest/MUMmer323/src/kurtz/streesrc/dfs.gen
strainest/MUMmer323/src/kurtz/streesrc/ex2leav.c
strainest/MUMmer323/src/kurtz/streesrc/iterator.c
strainest/MUMmer323/src/kurtz/streesrc/linkloc.c
strainest/MUMmer323/src/kurtz/streesrc/loc.c
strainest/MUMmer323/src/kurtz/streesrc/overmax.c
strainest/MUMmer323/src/kurtz/streesrc/oversucc.c
strainest/MUMmer323/src/kurtz/streesrc/scanpref.c
strainest/MUMmer323/src/kurtz/streesrc/stree.c
strainest/MUMmer323/src/kurtz/streesrc/streeacc.h
strainest/MUMmer323/src/kurtz/streesrc/streedbg.c
strainest/MUMmer323/src/kurtz/streesrc/streedef.h
strainest/MUMmer323/src/kurtz/streesrc/streefiledoc.c
strainest/MUMmer323/src/kurtz/streesrc/streehuge.h
strainest/MUMmer323/src/kurtz/streesrc/streelarge.h
strainest/MUMmer323/src/kurtz/streesrc/streemac.h
strainest/MUMmer323/src/kurtz/streesrc/streeproto.h
strainest/MUMmer323/src/kurtz/streesrc/streesmall.h
strainest/MUMmer323/src/kurtz/streesrc/streetyp.h
strainest/MUMmer323/src/kurtz/streesrc/symboldef.h
strainest/MUMmer323/src/tigr/Makefile
strainest/MUMmer323/src/tigr/annotate.cc
strainest/MUMmer323/src/tigr/combineMUMs.cc
strainest/MUMmer323/src/tigr/delta-filter.cc
strainest/MUMmer323/src/tigr/delta.cc
strainest/MUMmer323/src/tigr/delta.hh
strainest/MUMmer323/src/tigr/gaps.cc
strainest/MUMmer323/src/tigr/mgaps.cc
strainest/MUMmer323/src/tigr/postnuc.cc
strainest/MUMmer323/src/tigr/postpro.cc
strainest/MUMmer323/src/tigr/prenuc.cc
strainest/MUMmer323/src/tigr/prepro.cc
strainest/MUMmer323/src/tigr/repeat-match.cc
strainest/MUMmer323/src/tigr/show-aligns.cc
strainest/MUMmer323/src/tigr/show-coords.cc
strainest/MUMmer323/src/tigr/show-diff.cc
strainest/MUMmer323/src/tigr/show-snps.cc
strainest/MUMmer323/src/tigr/show-tiling.cc
strainest/MUMmer323/src/tigr/sw_align.cc
strainest/MUMmer323/src/tigr/sw_align.hh
strainest/MUMmer323/src/tigr/sw_alignscore.hh
strainest/MUMmer323/src/tigr/tigrinc.cc
strainest/MUMmer323/src/tigr/tigrinc.hh
strainest/MUMmer323/src/tigr/translate.cc
strainest/MUMmer323/src/tigr/translate.hh
strainest/api/__init__.py
strainest/api/_est.py
strainest/api/_map2snp.py
strainest/api/_mapgenome.py
strainest/api/_mapstats.py
strainest/api/_snpclust.py
strainest/api/_snpdist.py
strainest/scripts/__init__.py
strainest/scripts/strainest_cmd.py