README.rst
setup.py
prophyle/1step_match.py
prophyle/Makefile
prophyle/__init__.py
prophyle/_all_kmers.py
prophyle/_fa_norm.py
prophyle/_fa_to_kmers.py
prophyle/assignment.py
prophyle/build_taxonomic_tree.py
prophyle/contig_statistics.py
prophyle/create_final_fasta.py
prophyle/fake_extension.c
prophyle/get_nb_jobs.mk
prophyle/newick2makefile.py
prophyle/prophyle.py
prophyle/split_allseq.py
prophyle/test_newick_tree.py
prophyle/tree_annotate_kmers.py
prophyle/tree_print_fasta_names.py
prophyle.egg-info/PKG-INFO
prophyle.egg-info/SOURCES.txt
prophyle.egg-info/dependency_links.txt
prophyle.egg-info/entry_points.txt
prophyle.egg-info/requires.txt
prophyle.egg-info/top_level.txt
prophyle/prophyle-assembler/Makefile
prophyle/prophyle-assembler/kseq.h
prophyle/prophyle-assembler/prophyle-assembler
prophyle/prophyle-assembler/prophyle-assembler.cpp
prophyle/prophyle-assignment/__init__.py
prophyle/prophyle-index/Makefile
prophyle/prophyle-index/bitarray.c
prophyle/prophyle-index/bitarray.h
prophyle/prophyle-index/bwa_utils.c
prophyle/prophyle-index/bwa_utils.h
prophyle/prophyle-index/contig_node_translator.c
prophyle/prophyle-index/contig_node_translator.h
prophyle/prophyle-index/klcp.c
prophyle/prophyle-index/klcp.h
prophyle/prophyle-index/main.c
prophyle/prophyle-index/prophyle-index
prophyle/prophyle-index/prophyle_query.c
prophyle/prophyle-index/prophyle_query.h
prophyle/prophyle-index/prophyle_utils.h
prophyle/prophyle-index/bwa/Makefile
prophyle/prophyle-index/bwa/QSufSort.c
prophyle/prophyle-index/bwa/QSufSort.h
prophyle/prophyle-index/bwa/bamlite.c
prophyle/prophyle-index/bwa/bamlite.h
prophyle/prophyle-index/bwa/bntseq.c
prophyle/prophyle-index/bwa/bntseq.h
prophyle/prophyle-index/bwa/bwa
prophyle/prophyle-index/bwa/bwa.c
prophyle/prophyle-index/bwa/bwa.h
prophyle/prophyle-index/bwa/bwamem.c
prophyle/prophyle-index/bwa/bwamem.h
prophyle/prophyle-index/bwa/bwamem_extra.c
prophyle/prophyle-index/bwa/bwamem_pair.c
prophyle/prophyle-index/bwa/bwape.c
prophyle/prophyle-index/bwa/bwase.c
prophyle/prophyle-index/bwa/bwase.h
prophyle/prophyle-index/bwa/bwaseqio.c
prophyle/prophyle-index/bwa/bwashm.c
prophyle/prophyle-index/bwa/bwt.c
prophyle/prophyle-index/bwa/bwt.h
prophyle/prophyle-index/bwa/bwt_gen.c
prophyle/prophyle-index/bwa/bwt_lite.c
prophyle/prophyle-index/bwa/bwt_lite.h
prophyle/prophyle-index/bwa/bwtaln.c
prophyle/prophyle-index/bwa/bwtaln.h
prophyle/prophyle-index/bwa/bwtgap.c
prophyle/prophyle-index/bwa/bwtgap.h
prophyle/prophyle-index/bwa/bwtindex.c
prophyle/prophyle-index/bwa/bwtsw2.h
prophyle/prophyle-index/bwa/bwtsw2_aux.c
prophyle/prophyle-index/bwa/bwtsw2_chain.c
prophyle/prophyle-index/bwa/bwtsw2_core.c
prophyle/prophyle-index/bwa/bwtsw2_main.c
prophyle/prophyle-index/bwa/bwtsw2_pair.c
prophyle/prophyle-index/bwa/example.c
prophyle/prophyle-index/bwa/fastmap.c
prophyle/prophyle-index/bwa/is.c
prophyle/prophyle-index/bwa/kbtree.h
prophyle/prophyle-index/bwa/khash.h
prophyle/prophyle-index/bwa/kopen.c
prophyle/prophyle-index/bwa/kseq.h
prophyle/prophyle-index/bwa/ksort.h
prophyle/prophyle-index/bwa/kstring.c
prophyle/prophyle-index/bwa/kstring.h
prophyle/prophyle-index/bwa/ksw.c
prophyle/prophyle-index/bwa/ksw.h
prophyle/prophyle-index/bwa/kthread.c
prophyle/prophyle-index/bwa/kvec.h
prophyle/prophyle-index/bwa/main.c
prophyle/prophyle-index/bwa/malloc_wrap.c
prophyle/prophyle-index/bwa/malloc_wrap.h
prophyle/prophyle-index/bwa/maxk.c
prophyle/prophyle-index/bwa/pemerge.c
prophyle/prophyle-index/bwa/rle.c
prophyle/prophyle-index/bwa/rle.h
prophyle/prophyle-index/bwa/rope.c
prophyle/prophyle-index/bwa/rope.h
prophyle/prophyle-index/bwa/utils.c
prophyle/prophyle-index/bwa/utils.h