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github.com/EarlhamInst/KAT
/ functions
Functions
22,481 in github.com/EarlhamInst/KAT
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Functions
22,481
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Types & classes
25,829
↓ 19 callers
Function
clear
deps/seqan-library-2.0.0/include/seqan/bed_io/bed_record.h:425
↓ 19 callers
Method
close
deps/jellyfish-2.2.0/include/jellyfish/gzstream.hpp:99
↓ 19 callers
Function
dump
deps/jellyfish-2.2.0/sub_commands/dump_main.cc:36
↓ 19 callers
Function
end
deps/seqan-library-2.0.0/include/seqan/find/find_base.h:519
↓ 19 callers
Method
end
deps/jellyfish-2.2.0/lib/jsoncpp.cpp:3053
↓ 19 callers
Function
endPosition
deps/seqan-library-2.0.0/include/seqan/sequence/segment_infix.h:288
↓ 19 callers
Function
fail
If in testing mode then raise an AssertionFailedException.
deps/seqan-library-2.0.0/include/seqan/basic/debug_test_system.h:1703
↓ 19 callers
Function
getCargo
deps/seqan-library-2.0.0/include/seqan/graph_types/graph_edgestump.h:408
↓ 19 callers
Function
get_system_time
deps/boost/boost/thread/thread_time.hpp:19
↓ 19 callers
Function
globalAlignment
deps/seqan-library-2.0.0/include/seqan/align/global_alignment_banded.h:80
↓ 19 callers
Method
increment
deps/boost/boost/intrusive/detail/size_holder.hpp:45
↓ 19 callers
Function
isLeaf
deps/seqan-library-2.0.0/include/seqan/index/index_esa_stree.h:2841
↓ 19 callers
Method
join
deps/boost/boost/thread/detail/thread.hpp:771
↓ 19 callers
Method
mark
Get the value of marks::period_mark it was created with.
deps/boost/boost/locale/date_time_facet.hpp:82
↓ 19 callers
Method
mean
(self, mean=None)
scripts/kat/peak.py:49
↓ 19 callers
Function
one_of
deps/boost/boost/algorithm/cxx11/one_of.hpp:31
↓ 19 callers
Function
one_of_equal
deps/boost/boost/algorithm/cxx11/one_of.hpp:60
↓ 19 callers
Method
peek
deps/jellyfish-2.2.0/include/jellyfish/mer_overlap_sequence_parser.hpp:291
↓ 19 callers
Function
position
deps/seqan-library-2.0.0/include/seqan/consensus/consensus_score.h:167
↓ 19 callers
Method
release
no throw
deps/boost/boost/unordered/detail/implementation.hpp:1874
↓ 19 callers
Method
release
deps/boost/boost/thread/lock_types.hpp:1198
↓ 19 callers
Function
score
deps/seqan-library-2.0.0/include/seqan/seeds/seeds_seed_base.h:545
↓ 19 callers
Function
setPosition
deps/seqan-library-2.0.0/include/seqan/find/find_base.h:812
↓ 19 callers
Method
set_bits
deps/jellyfish-2.2.0/include/jellyfish/mer_dna.hpp:490
↓ 19 callers
Function
start_thread
deps/boost/boost/thread/detail/thread.hpp:184
↓ 19 callers
Function
toSourcePosition
deps/seqan-library-2.0.0/include/seqan/align/gaps_array.h:428
↓ 19 callers
Function
valueConstruct
deps/seqan-library-2.0.0/include/seqan/sequence/string_packed.h:1441
↓ 19 callers
Method
what
deps/boost/libs/program_options/src/value_semantic.cpp:261
↓ 18 callers
Function
SEQAN_ASSERT_LEQ_MSG
deps/seqan-library-2.0.0/include/seqan/basic/debug_test_system.h:2511
↓ 18 callers
Function
addressof
deps/boost/boost/container/detail/addressof.hpp:28
↓ 18 callers
Function
append_test_aux
deps/boost/libs/filesystem/test/path_test.cpp:1527
↓ 18 callers
Function
begin
deps/seqan-library-2.0.0/include/seqan/sequence_journaled/journal_entries_sorted_array.h:191
↓ 18 callers
Method
c
deps/jellyfish-2.2.0/include/jellyfish/rectangular_binary_matrix.hpp:96
↓ 18 callers
Function
clear
deps/seqan-library-2.0.0/include/seqan/basic/holder_tristate.h:545
↓ 18 callers
Function
clearGaps
deps/seqan-library-2.0.0/include/seqan/align/gaps_array.h:685
↓ 18 callers
Method
display_flags
deps/boost/libs/locale/src/shared/formatting.cpp:92
↓ 18 callers
Method
egptr
deps/seqan-library-2.0.0/include/seqan/stream/file_stream.h:944
↓ 18 callers
Method
empty
deps/boost/boost/test/utils/basic_cstring/basic_cstring.hpp:270
↓ 18 callers
Method
empty
deps/boost/boost/regex/v4/basic_regex.hpp:523
↓ 18 callers
Method
eof
Eof check ! Check the eof condition. Eof condition means that there is nothing more to be searched i.e. find_iterator
deps/boost/boost/algorithm/string/find_iterator.hpp:160
↓ 18 callers
Function
func
deps/boost/libs/filesystem/example/tchar.cpp:19
↓ 18 callers
Function
get_current_thread_data
deps/boost/libs/thread/src/win32/thread.cpp:123
↓ 18 callers
Function
iequals
deps/boost/boost/algorithm/string/predicate.hpp:341
↓ 18 callers
Method
imbue
deps/boost/boost/regex/v4/basic_regex.hpp:666
↓ 18 callers
Function
infix
deps/seqan-library-2.0.0/include/seqan/index/index_base.h:1051
↓ 18 callers
Method
is_short
deps/boost/boost/container/string.hpp:239
↓ 18 callers
Function
length
deps/seqan-library-2.0.0/include/seqan/sequence/string_packed.h:537
↓ 18 callers
Function
length
deps/seqan-library-2.0.0/include/seqan/index/index_esa_algs.h:692
↓ 18 callers
Method
mark_exceptional_finish_internal
deps/boost/boost/thread/future.hpp:412
↓ 18 callers
Function
move
deps/seqan-library-2.0.0/include/seqan/basic/tuple_base.h:333
↓ 18 callers
Method
name
deps/boost/boost/core/typeinfo.hpp:61
↓ 18 callers
Function
none_of_equal
deps/boost/boost/algorithm/cxx11/none_of.hpp:59
↓ 18 callers
Function
position
deps/seqan-library-2.0.0/include/seqan/sequence_journaled/sequence_journaled_iterator.h:726
↓ 18 callers
Method
push
deps/seqan-library-2.0.0/include/seqan/pipe/pool_base.h:877
↓ 18 callers
Method
resize
<b>Effects</b>: Inserts or erases elements at the end such that the size becomes n. New elements are copy constructed from x. <b>Throws</b>: If memor
deps/boost/boost/container/string.hpp:1088
↓ 18 callers
Method
size
size:
deps/boost/boost/regex/v4/match_results.hpp:113
↓ 18 callers
Function
test_cmdline
deps/boost/libs/program_options/test/cmdline_test.cpp:99
↓ 18 callers
Function
throws
Misuse of the error_code object is turned into a noisy failure by poisoning the reference. This particular implementation doesn't produce warnings or
deps/boost/boost/system/error_code.hpp:555
↓ 18 callers
Function
times
deps/boost/boost/config/platform/vxworks.hpp:318
↓ 18 callers
Function
to_lower
deps/boost/boost/locale/conversion.hpp:248
↓ 18 callers
Function
to_timespec
deps/boost/boost/thread/pthread/timespec.hpp:37
↓ 18 callers
Function
value
deps/seqan-library-2.0.0/include/seqan/consensus/consensus_score.h:185
↓ 18 callers
Method
wait
deps/boost/boost/thread/futures/wait_for_any.hpp:121
↓ 17 callers
Function
_computeTrack
deps/seqan-library-2.0.0/include/seqan/align/dp_algorithm_impl.h:296
↓ 17 callers
Function
_computeWordProbGivenPrefix
deps/seqan-library-2.0.0/include/seqan/alignment_free/af_d2z.h:602
↓ 17 callers
Function
_indent
deps/seqan-library-2.0.0/include/seqan/arg_parse/arg_parse_ctd_support.h:248
↓ 17 callers
Function
addEdge
deps/seqan-library-2.0.0/include/seqan/graph_align/graph_impl_align.h:597
↓ 17 callers
Function
assignNextT
deps/seqan-library-2.0.0/include/seqan/graph_types/graph_edgestump.h:773
↓ 17 callers
Function
begin
deps/seqan-library-2.0.0/include/seqan/index/index_esa_stree.h:1557
↓ 17 callers
Function
beginPosition
deps/seqan-library-2.0.0/include/seqan/find/find_base.h:429
↓ 17 callers
Method
cbefore_begin
<b>Effects</b>: Returns an iterator that points to a position before the first element. Equivalent to "end()" <b>Throws</b>: Nothing. <b>Complexity<
deps/boost/boost/intrusive/slist.hpp:621
↓ 17 callers
Method
clear
deps/boost/boost/timer/timer.hpp:44
↓ 17 callers
Function
copy_file
deps/boost/libs/filesystem/example/mbcopy.cpp:33
↓ 17 callers
Method
deallocate
deps/boost/boost/container/string.hpp:301
↓ 17 callers
Function
difference
deps/seqan-library-2.0.0/include/seqan/pipe/pipe_iterator.h:249
↓ 17 callers
Function
do_regex_search
deps/boost/boost/regex/icu.hpp:600
↓ 17 callers
Method
eof
deps/seqan-library-2.0.0/include/seqan/pipe/pool_base.h:882
↓ 17 callers
Function
erase
deps/seqan-library-2.0.0/include/seqan/sequence/string_set_owner.h:225
↓ 17 callers
Function
extract
<b>Effects</b>: Removes the first element in the container with key equivalent to k. <b>Returns</b>: A node_type owning the element if found, otherwi
deps/boost/boost/container/map.hpp:981
↓ 17 callers
Method
find
deps/boost/boost/test/utils/basic_cstring/basic_cstring.hpp:509
↓ 17 callers
Function
freePage
deps/seqan-library-2.0.0/include/seqan/file/file_page.h:213
↓ 17 callers
Method
generic_string
deps/boost/libs/filesystem/src/path.cpp:176
↓ 17 callers
Method
hash
Calculate a hash of a text in range [b,e). The value can be used for collation sensitive string comparison. If compare(level,b1,e1,b2,e2) == 0 then h
deps/boost/boost/locale/collator.hpp:106
↓ 17 callers
Method
height
lib/include/kat/sparse_matrix.hpp:158
↓ 17 callers
Method
insert_unique_check
deps/boost/boost/intrusive/bstree_algorithms.hpp:997
↓ 17 callers
Function
isEqual
deps/seqan-library-2.0.0/include/seqan/basic/fundamental_tags.h:524
↓ 17 callers
Function
make_iterator_range
deps/boost/boost/range/iterator_range_core.hpp:758
↓ 17 callers
Method
map
deps/boost/libs/locale/src/icu/boundary.cpp:191
↓ 17 callers
Method
mark_exceptional_finish
deps/boost/boost/thread/future.hpp:418
↓ 17 callers
Method
open
deps/boost/libs/regex/src/fileiter.cpp:88
↓ 17 callers
Method
owns_lock
deps/boost/boost/thread/lock_types.hpp:1190
↓ 17 callers
Function
representative
deps/seqan-library-2.0.0/include/seqan/index/index_qgram_bucketrefinement.h:568
↓ 17 callers
Method
swap
deps/boost/libs/locale/src/shared/date_time.cpp:409
↓ 17 callers
Function
tick_factor
deps/boost/boost/chrono/detail/inlined/posix/process_cpu_clocks.hpp:25
↓ 17 callers
Method
transform
deps/boost/libs/regex/src/c_regex_traits.cpp:49
↓ 17 callers
Function
value
deps/seqan-library-2.0.0/include/seqan/journaled_set/journaled_set_impl.h:117
↓ 17 callers
Function
waitFor
deps/seqan-library-2.0.0/include/seqan/parallel/parallel_lock.h:80
↓ 16 callers
Function
AssertionFailure
Makes a failed assertion result.
tests/gtest/src/gtest-all.cc:2457
↓ 16 callers
Function
AssertionFailure
Makes a failed assertion result.
deps/jellyfish-2.2.0/unit_tests/gtest/src/gtest-all.cc:2457
↓ 16 callers
Function
FilePath
tests/gtest/gtest.h:3549
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