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Functions22,481 in github.com/EarlhamInst/KAT

⨍ Functions 22,481◇ Types & classes 25,829
↓ 10 callersFunctionRange
deps/jellyfish-2.2.0/unit_tests/gtest/gtest.h:15808
↓ 10 callersFunctionSWIG_AddCast
deps/jellyfish-2.2.0/swig/python/swig_wrap.cpp:320
↓ 10 callersFunctionSWIG_From_bool
deps/jellyfish-2.2.0/swig/python/swig_wrap.cpp:3339
↓ 10 callersFunctionSWIG_From_bool
deps/jellyfish-2.2.0/swig/ruby/swig_wrap.cpp:2028
↓ 10 callersFunction_getAnchor
deps/seqan-library-2.0.0/include/seqan/align/gaps_anchor.h:347
↓ 10 callersFunction_getSeqBeginAndEnd
deps/seqan-library-2.0.0/include/seqan/graph_align/graph_algorithm_refine_align.h:93
↓ 10 callersFunction_internalComputeScore
deps/seqan-library-2.0.0/include/seqan/align/dp_formula_affine.h:168
↓ 10 callersFunction_internalComputeScore
deps/seqan-library-2.0.0/include/seqan/align/dp_formula_dynamic.h:65
↓ 10 callersFunction_internalOrdValue
deps/seqan-library-2.0.0/include/seqan/modifier/modifier_alphabet_expansion.h:480
↓ 10 callersFunction_unclippedLength
deps/seqan-library-2.0.0/include/seqan/align/gaps_anchor.h:388
↓ 10 callersFunctionassign
deps/seqan-library-2.0.0/include/seqan/basic/holder_tristate.h:966
↓ 10 callersMethodassign
Assigns from another optional<T> (deep-copies the rhs value)
deps/boost/boost/optional/optional.hpp:240
↓ 10 callersFunctionassignNextS
deps/seqan-library-2.0.0/include/seqan/graph_types/graph_edgestump.h:857
↓ 10 callersMethodbegin
deps/boost/boost/unordered/detail/implementation.hpp:2970
↓ 10 callersFunctionbeginPosition
deps/seqan-library-2.0.0/include/seqan/sequence/segment_prefix.h:209
↓ 10 callersFunctionclear
deps/seqan-library-2.0.0/include/seqan/index/find_backtracking.h:622
↓ 10 callersMethodclear
<b>Effects</b>: Erases all the elements of the container. <b>Throws</b>: Nothing. <b>Complexity</b>: Linear to the number of elements of the list. i
deps/boost/boost/intrusive/slist.hpp:388
↓ 10 callersMethodclear
deps/seqan-library-2.0.0/include/seqan/pipe/pool_base.h:793
↓ 10 callersFunctioncountKmers
deps/seqan-library-2.0.0/include/seqan/alignment_free/kmer_functions.h:131
↓ 10 callersMethoddecrement
deps/boost/boost/intrusive/detail/size_holder.hpp:42
↓ 10 callersFunctiondo_shuffle
deps/boost/libs/algorithm/test/sort_subrange_test.cpp:16
↓ 10 callersFunctiondo_shuffle
deps/boost/libs/algorithm/test/partition_subrange_test.cpp:16
↓ 10 callersFunctionempty
deps/boost/boost/range/empty.hpp:26
↓ 10 callersMethodempty
deps/boost/boost/algorithm/string/detail/util.hpp:55
↓ 10 callersMethodend
deps/boost/boost/locale/boundary/index.hpp:144
↓ 10 callersMethodend
deps/boost/boost/range/iterator_range_core.hpp:226
↓ 10 callersFunctionendPosition
deps/seqan-library-2.0.0/include/seqan/align/align_cols.h:371
↓ 10 callersMethodequal_range
deps/boost/boost/intrusive/bstree.hpp:401
↓ 10 callersMethoderror
deps/jellyfish-2.2.0/unit_tests/test_main_cmdline.hpp:374
↓ 10 callersMethodfill_standard
deps/jellyfish-2.2.0/include/jellyfish/generic_file_header.hpp:155
↓ 10 callersFunctionfind
deps/boost/boost/algorithm/string/find.hpp:50
↓ 10 callersFunctionfloor
deps/boost/boost/chrono/floor.hpp:25
↓ 10 callersFunctiongetOccurrence
deps/seqan-library-2.0.0/include/seqan/index/index_qgram.h:2610
↓ 10 callersFunctiongetRank
deps/seqan-library-2.0.0/include/seqan/index/index_fm_rank_dictionary_wt.h:276
↓ 10 callersMethodgetSingleInput
lib/include/kat/input_handler.hpp:60
↓ 10 callersMethodget_neg_offset
deps/boost/boost/date_time/date_iterator.hpp:89
↓ 10 callersMethodget_offset
deps/boost/boost/date_time/date_iterator.hpp:85
↓ 10 callersMethodget_pointer
@return A pointer to the object referenced by the stored reference. @remark Does not throw. */
deps/boost/boost/core/ref.hpp:106
↓ 10 callersFunctiongreatestCommonDivisor
deps/seqan-library-2.0.0/include/seqan/math/math_common_factor.h:497
↓ 10 callersFunctiongroup
deps/boost/boost/format/group.hpp:471
↓ 10 callersFunctionhead_finder
"Head" finder ! Construct the \c head_finder. The finder returns a head of a given input. The head is a prefix of a string up
deps/boost/boost/algorithm/string/finder.hpp:175
↓ 10 callersFunctionhelpMessage
src/kat.cc:113
↓ 10 callersFunctionis_decreasing
deps/boost/boost/algorithm/cxx11/is_sorted.hpp:195
↓ 10 callersMethodis_homopolymer
Check if the mer is a homopolymer
deps/jellyfish-2.2.0/swig/python/jellyfish.py:121
↓ 10 callersFunctionis_increasing
deps/boost/boost/algorithm/cxx11/is_sorted.hpp:162
↓ 10 callersMethodis_nan
deps/boost/boost/date_time/int_adapter.hpp:125
↓ 10 callersMethodis_open
deps/seqan-library-2.0.0/include/seqan/stream/file_stream.h:1161
↓ 10 callersFunctionis_strictly_decreasing
deps/boost/boost/algorithm/cxx11/is_sorted.hpp:258
↓ 10 callersFunctionis_strictly_increasing
deps/boost/boost/algorithm/cxx11/is_sorted.hpp:227
↓ 10 callersMethodkey
deps/jellyfish-2.2.0/lib/jsoncpp.cpp:1387
↓ 10 callersFunctionlcpAt
deps/seqan-library-2.0.0/include/seqan/index/index_base.h:1174
↓ 10 callersFunctionlock
deps/boost/boost/thread/lock_types.hpp:334
↓ 10 callersFunctionmake3
deps/boost/libs/locale/test/test_utf.cpp:24
↓ 10 callersFunctionmake3
deps/boost/libs/locale/test/test_codepage_converter.cpp:28
↓ 10 callersFunctionmake_transform_iterator
deps/boost/boost/iterator/transform_iterator.hpp:134
↓ 10 callersMethodmerge
deps/boost/boost/date_time/period.hpp:337
↓ 10 callersFunctionnext
deps/boost/boost/test/utils/foreach.hpp:161
↓ 10 callersMethodnode_bucket
deps/boost/boost/unordered/detail/implementation.hpp:2928
↓ 10 callersFunctionnotify
Does nothing. */
deps/boost/boost/program_options/value_semantic.hpp:154
↓ 10 callersMethodnow
deps/boost/libs/chrono/example/time2_demo.cpp:980
↓ 10 callersMethodpbase
deps/seqan-library-2.0.0/include/seqan/stream/file_stream.h:946
↓ 10 callersMethodpop
deps/boost/boost/filesystem/operations.hpp:1123
↓ 10 callersMethodpriv_long_size
deps/boost/boost/container/string.hpp:411
↓ 10 callersMethodraw_name
deps/boost/boost/type_index/stl_type_index.hpp:121
↓ 10 callersFunctionread
deps/seqan-library-2.0.0/include/seqan/store/store_io.h:161
↓ 10 callersMethodread
deps/seqan-library-2.0.0/include/seqan/statistics/statistics_markov_model.h:453
↓ 10 callersFunctionrequire_boolean_expr
deps/boost/boost/concept_check.hpp:226
↓ 10 callersFunctionresize
deps/seqan-library-2.0.0/include/seqan/align/matrix_base.h:459
↓ 10 callersMethodresize
deps/jellyfish-2.2.0/lib/jsoncpp.cpp:2583
↓ 10 callersFunctionreverse
deps/seqan-library-2.0.0/include/seqan/index/shape_gapped.h:696
↓ 10 callersFunctionsay_what
deps/boost/libs/filesystem/example/path_info.cpp:15
↓ 10 callersFunctionsecond
Get period_type for: second [0..59]
deps/boost/boost/locale/date_time.hpp:141
↓ 10 callersFunctionset
deps/boost/boost/locale/formatting.hpp:228
↓ 10 callersFunctionset
deps/seqan-library-2.0.0/include/seqan/sequence/segment_infix.h:380
↓ 10 callersFunctionsetPosition
deps/seqan-library-2.0.0/include/seqan/basic/iterator_adaptor.h:376
↓ 10 callersMethodshift
deps/boost/boost/date_time/period.hpp:173
↓ 10 callersFunctionshiftRightLogical
deps/seqan-library-2.0.0/include/seqan/basic/basic_simd_vector.h:269
↓ 10 callersFunctionswap
deps/boost/boost/array.hpp:350
↓ 10 callersMethodswap
deps/boost/boost/thread/future.hpp:1346
↓ 10 callersFunctiontick_factor
deps/boost/boost/chrono/detail/inlined/mac/process_cpu_clocks.hpp:28
↓ 10 callersMethodtime_count
deps/boost/boost/date_time/time_system_counted.hpp:80
↓ 10 callersFunctiontoken_finder
deps/boost/boost/algorithm/string/finder.hpp:217
↓ 10 callersFunctiontoupper
deps/boost/boost/regex/icu.hpp:141
↓ 10 callersFunctionuninitialized_move_alloc_n
F models ForwardIterator
deps/boost/boost/container/detail/copy_move_algo.hpp:329
↓ 10 callersMethodupdate_add
Read a Jellyfish database sequentially
deps/jellyfish-2.2.0/swig/python/jellyfish.py:290
↓ 10 callersFunctionweakly_canonical
deps/boost/libs/filesystem/src/operations.cpp:2002
↓ 9 callersMethodAtEnd
tests/gtest/gtest.h:13858
↓ 9 callersMethodAtEnd
deps/jellyfish-2.2.0/unit_tests/gtest/gtest.h:13858
↓ 9 callersFunctionBOOST_MATH_META_INT
deps/boost/boost/math/policies/policy.hpp:238
↓ 9 callersMethodGet
tests/gtest/src/gtest-all.cc:1381
↓ 9 callersMethodPassed
Returns true iff the unit test passed (i.e. all test cases passed).
tests/gtest/src/gtest-all.cc:5208
↓ 9 callersMethodPassed
Returns true iff the unit test passed (i.e. all test cases passed).
deps/jellyfish-2.2.0/unit_tests/gtest/src/gtest-all.cc:5208
↓ 9 callersFunction_computeScore
deps/seqan-library-2.0.0/include/seqan/align/dp_formula.h:149
↓ 9 callersFunction_extendAlignmentImpl
deps/seqan-library-2.0.0/include/seqan/align_extend/align_extend.h:229
↓ 9 callersFunction_getOtherSequenceAndProject
deps/seqan-library-2.0.0/include/seqan/graph_align/graph_algorithm_refine_align.h:46
↓ 9 callersFunction_init
deps/seqan-library-2.0.0/include/seqan/index/find2_functors.h:135
↓ 9 callersFunction_initStringSetLimits
deps/seqan-library-2.0.0/include/seqan/sequence/string_set_view.h:90
↓ 9 callersFunction_isInBand
deps/seqan-library-2.0.0/include/seqan/align/dp_traceback_impl.h:179
↓ 9 callersFunction_open
deps/seqan-library-2.0.0/include/seqan/stream/formatted_file.h:616
↓ 9 callersFunction_processFilePage
deps/seqan-library-2.0.0/include/seqan/stream/file_stream.h:469
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