projects / bowtie.git / commit
| author | Diane Trout <diane@caltech.edu> | |
| Thu, 6 Dec 2012 20:06:15 +0000 (12:06 -0800) | ||
| committer | Diane Trout <diane@caltech.edu> | |
| Thu, 6 Dec 2012 20:06:15 +0000 (12:06 -0800) | ||
| commit | 3cce4167a5b99fda4b9b372ee73494ed36dbcd59 | |
| tree | a5b083d9bc282bd28efc1a69b54c92802120cfd7 | tree | snapshot |
| AUTHORS | [new file with mode: 0644] | blob |
| COPYING | [new file with mode: 0644] | blob |
| MANUAL | [new file with mode: 0644] | blob |
| MANUAL.markdown | [new file with mode: 0644] | blob |
| Makefile | [new file with mode: 0644] | blob |
| NEWS | [new file with mode: 0644] | blob |
| SeqAn-1.1/GPL.txt | [new file with mode: 0644] | blob |
| SeqAn-1.1/LGPL.txt | [new file with mode: 0644] | blob |
| SeqAn-1.1/README.txt | [new file with mode: 0644] | blob |
| SeqAn-1.1/platform_linux_gcc.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/platform_windows_mingw.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/platform_windows_vs.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_aggregates.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_allocator_interface.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_allocator_multipool.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_allocator_simple.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_allocator_singlepool.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_allocator_to_std.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_alphabet_interface.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_alphabet_interface2.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_alphabet_simple.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_alphabet_simple_tabs.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_alphabet_trait_basic.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_compare.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_converter.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_counted_ptr.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_debug.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_definition.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_generated_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_holder.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_host.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_iterator.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_iterator_adapt_std.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_iterator_adaptor.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_iterator_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_iterator_position.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_iterator_simple.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_metaprogramming.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_operator.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_pointer.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_profile.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_proxy.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_tag.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_transport.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_type.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/basic/basic_volatile_ptr.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/chunk_collector.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/cstream.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_array.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_format.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_format_cgviz.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_format_fasta.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_format_fasta_align.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_format_guess.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_format_raw.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/file_generated_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/meta.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/stream.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/file/stream_algorithms.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_generated_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_horspool.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_multi.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_multiple_shiftand.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_score.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/find/find_set_horspool.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/index_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/index_find.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/index_generated_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/index_manual_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/index_qgram_find.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/index_sa_lss.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/shape_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/shape_gapped.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/index/shape_predefined.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/platform.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/lexical.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/segment_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/segment_infix.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/segment_prefix.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/segment_suffix.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/sequence_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/sequence_generated_forwards.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/sequence_interface.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/sequence_multiple.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/sequence_shortcuts.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/std_string.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_alloc.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_array.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_base.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_cstyle.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_packed.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_pointer.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_stack.h | [new file with mode: 0644] | blob |
| SeqAn-1.1/seqan/sequence/string_value_expand.h | [new file with mode: 0644] | blob |
| TUTORIAL | [new file with mode: 0644] | blob |
| VERSION | [new file with mode: 0644] | blob |
| aligner.h | [new file with mode: 0644] | blob |
| aligner_0mm.h | [new file with mode: 0644] | blob |
| aligner_1mm.h | [new file with mode: 0644] | blob |
| aligner_23mm.h | [new file with mode: 0644] | blob |
| aligner_metrics.h | [new file with mode: 0644] | blob |
| aligner_seed_mm.h | [new file with mode: 0644] | blob |
| alphabet.c | [new file with mode: 0644] | blob |
| alphabet.h | [new file with mode: 0644] | blob |
| annot.cpp | [new file with mode: 0644] | blob |
| annot.h | [new file with mode: 0644] | blob |
| assert_helpers.h | [new file with mode: 0644] | blob |
| auto_array.h | [new file with mode: 0644] | blob |
| binary_sa_search.h | [new file with mode: 0644] | blob |
| bitpack.h | [new file with mode: 0644] | blob |
| bitset.h | [new file with mode: 0644] | blob |
| blockwise_sa.h | [new file with mode: 0644] | blob |
| bowtie_build_main.cpp | [new file with mode: 0644] | blob |
| bowtie_inspect.cpp | [new file with mode: 0644] | blob |
| bowtie_main.cpp | [new file with mode: 0644] | blob |
| ccnt_lut.cpp | [new file with mode: 0644] | blob |
| chaincat.cpp | [new file with mode: 0644] | blob |
| color.cpp | [new file with mode: 0644] | blob |
| color.h | [new file with mode: 0644] | blob |
| color_dec.cpp | [new file with mode: 0644] | blob |
| color_dec.h | [new file with mode: 0644] | blob |
| diff_sample.h | [new file with mode: 0644] | blob |
| doc/README | [new file with mode: 0644] | blob |
| doc/manual.html | [new file with mode: 0644] | blob |
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| ebwt.cpp | [new file with mode: 0644] | blob |
| ebwt.h | [new file with mode: 0644] | blob |
| ebwt_build.cpp | [new file with mode: 0644] | blob |
| ebwt_search.cpp | [new file with mode: 0644] | blob |
| ebwt_search_backtrack.h | [new file with mode: 0644] | blob |
| ebwt_search_util.cpp | [new file with mode: 0644] | blob |
| ebwt_search_util.h | [new file with mode: 0644] | blob |
| edit.cpp | [new file with mode: 0644] | blob |
| edit.h | [new file with mode: 0644] | blob |
| endian_swap.h | [new file with mode: 0644] | blob |
| filebuf.h | [new file with mode: 0644] | blob |
| formats.h | [new file with mode: 0644] | blob |
| genomes/NC_008253.fna | [new file with mode: 0644] | blob |
| hit.cpp | [new file with mode: 0644] | blob |
| hit.h | [new file with mode: 0644] | blob |
| hit_set.cpp | [new file with mode: 0644] | blob |
| hit_set.h | [new file with mode: 0644] | blob |
| indexes/e_coli.1.ebwt | [new file with mode: 0644] | blob |
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| indexes/e_coli.README | [new file with mode: 0644] | blob |
| indexes/e_coli.rev.1.ebwt | [new file with mode: 0644] | blob |
| indexes/e_coli.rev.2.ebwt | [new file with mode: 0644] | blob |
| log.cpp | [new file with mode: 0644] | blob |
| log.h | [new file with mode: 0644] | blob |
| mm.h | [new file with mode: 0644] | blob |
| multikey_qsort.h | [new file with mode: 0644] | blob |
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| random_test.cpp | [new file with mode: 0644] | blob |
| range.h | [new file with mode: 0644] | blob |
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| range_chaser.h | [new file with mode: 0644] | blob |
| range_source.h | [new file with mode: 0644] | blob |
| reads/e_coli_1000.fa | [new file with mode: 0644] | blob |
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| reads/e_coli_1000_2.fa | [new file with mode: 0644] | blob |
| reads/e_coli_1000_2.fq | [new file with mode: 0644] | blob |
| ref_aligner.cpp | [new file with mode: 0644] | blob |
| ref_aligner.h | [new file with mode: 0644] | blob |
| ref_read.cpp | [new file with mode: 0644] | blob |
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| reference.h | [new file with mode: 0644] | blob |
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| scripts/gen_solqual_lookup.pl | [new file with mode: 0755] | blob |
| scripts/make_a_thaliana_tair.sh | [new file with mode: 0755] | blob |
| scripts/make_b_taurus_UMD3.sh | [new file with mode: 0755] | blob |
| scripts/make_c_elegans_ws200.sh | [new file with mode: 0755] | blob |
| scripts/make_canFam2.sh | [new file with mode: 0755] | blob |
| scripts/make_d_melanogaster_fb5_22.sh | [new file with mode: 0755] | blob |
| scripts/make_e_coli.sh | [new file with mode: 0755] | blob |
| scripts/make_galGal3.sh | [new file with mode: 0755] | blob |
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| scripts/pe_verify.pl | [new file with mode: 0755] | blob |
| scripts/random_bowtie_tests.pl | [new file with mode: 0755] | blob |
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| search_1mm_phase1.c | [new file with mode: 0644] | blob |
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