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github.com/ablab/spades
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Functions
40,422 in github.com/ablab/spades
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Functions
40,422
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Types & classes
24,500
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Endpoints
21
↓ 71 callers
Method
end
ext/include/llvm/ADT/SmallVector.h:154
↓ 71 callers
Function
header
for the benefit of AugmentPolicy::augmented_interface */
ext/include/boost/multi_index/detail/ord_index_impl.hpp:1130
↓ 71 callers
Function
p7_trace_Destroy
Function: p7_trace_Destroy() * Synopsis: Frees a trace. * * Purpose: Frees a trace structure <tr>. * * Returns: (void) */
ext/src/hmmer/src/p7_trace.c:280
↓ 71 callers
Method
reserve
src/common/adt/flat_map.hpp:70
↓ 71 callers
Method
set
--------------------------------------------------------------------------
src/projects/mts/kmc_api/mmer.h:158
↓ 71 callers
Method
size
src/common/assembly_graph/paths/mapping_path.hpp:42
↓ 70 callers
Method
Back
src/common/assembly_graph/paths/bidirectional_path.hpp:204
↓ 70 callers
Method
OutgoingEdgeCount
src/common/assembly_graph/core/graph_core.hpp:617
↓ 70 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/DMatTDMatSchurExpr.h:258
↓ 70 callers
Method
get_mark
(self)
ext/src/python_libs/pyyaml3/reader.py:114
↓ 69 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/DMatSMatKronExpr.h:209
↓ 69 callers
Method
push_back
src/common/adt/kmer_vector.hpp:84
↓ 69 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/DMatSMatKronExpr.h:199
↓ 69 callers
Method
sequence
src/common/io/reads/single_read.hpp:105
↓ 69 callers
Method
size
Size function !\brief Returns the current size/dimension of the vector. // // \return The size of the vector. */
ext/include/blaze/blaze/math/expressions/DVecDVecMapExpr.h:536
↓ 68 callers
Method
Subseq
O(1) including from, excluding to safe if not #DEFINE NDEBUG
src/common/sequence/sequence.hpp:705
↓ 68 callers
Function
close
return 1 if a and b are approximately equal relative to floating-point precision, 0 otherwise */
ext/src/nlopt/neldermead/nldrmd.c:47
↓ 68 callers
Function
esl_memstrcmp
Function: esl_memstrcmp() * Synopsis: Compare a memory line and string for equality. * * Purpose: Compare line <p> of length <n> to a NUL-termi
ext/src/easel/esl_mem.c:581
↓ 68 callers
Method
get
--------------------------------------------------------------------------
src/projects/mts/kmc_api/mmer.h:128
↓ 68 callers
Function
gr
src/common/math/xmath.h:315
↓ 67 callers
Function
GreaterThan
ext/src/googletest/googletest/test/gtest_unittest.cc:2440
↓ 67 callers
Function
m
(a,b)
src/tools/webvis/static/jquery.js:2
↓ 67 callers
Function
root
ext/include/boost/multi_index/detail/ord_index_impl.hpp:1132
↓ 66 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/SMatDMatKronExpr.h:208
↓ 66 callers
Function
empty
empty - Check if the array is empty.
ext/include/llvm/ADT/ArrayRef.h:151
↓ 66 callers
Function
esl_random
Function: esl_random() * Synopsis: Generate a uniform random deviate on [0,1) * * Purpose: Returns a uniform deviate x, $0.0 \leq x < 1.0$, give
ext/src/easel/esl_random.c:283
↓ 66 callers
Function
map
Type of the custom operation
ext/include/blaze/blaze/math/expressions/DMatMapExpr.h:1101
↓ 66 callers
Function
p7_syslog
ext/src/hmmer/src/hmmdutils.c:170
↓ 66 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/SMatDMatKronExpr.h:198
↓ 65 callers
Method
OutgoingEdges
src/common/assembly_graph/core/graph_core.hpp:620
↓ 65 callers
Method
begin
src/common/modules/path_extend/pe_utils.hpp:164
↓ 65 callers
Function
columns
Storage order of the matrix
ext/include/blaze/blaze/math/expressions/Matrix.h:639
↓ 65 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/DMatTSMatMultExpr.h:359
↓ 65 callers
Method
conjugate
src/common/assembly_graph/core/graph.hpp:95
↓ 65 callers
Function
rows
Storage order of the matrix
ext/include/blaze/blaze/math/expressions/Matrix.h:623
↓ 64 callers
Method
IncomingEdgeCount
src/common/assembly_graph/core/graph_core.hpp:618
↓ 64 callers
Method
end
Type tag
ext/include/blaze/blaze/math/sparse/ZeroVector.h:501
↓ 64 callers
Method
get
ext/src/googletest/googlemock/test/gmock-matchers-containers_test.cc:286
↓ 64 callers
Function
kputc
ext/include/samtools/kstring.h:98
↓ 64 callers
Method
length
src/projects/spades/domain_graph.hpp:138
↓ 64 callers
Function
make_range
src/common/adt/iterator_range.hpp:42
↓ 64 callers
Function
parse_expect
Function: parse_expect() * Synopsis: Expect the next bytes to parse match * Incept: MSF, Mon Dec 10, 2009 [Janelia] * * Purpose: Match if t
ext/src/easel/esl_sqio_ncbi.c:2265
↓ 64 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/DMatTSMatMultExpr.h:349
↓ 63 callers
Function
BinRead
src/common/io/binary/binary.hpp:80
↓ 63 callers
Method
end
src/projects/spades/series_analysis.cpp:118
↓ 63 callers
Method
join
Type of the condition variable
ext/include/blaze/blaze/util/Thread.h:441
↓ 63 callers
Function
kputs
ext/include/samtools/kstring.h:93
↓ 63 callers
Method
next
ext/include/boost/multi_index/detail/seq_index_node.hpp:164
↓ 63 callers
Method
offset
! \cond BLAZE_INTERNAL */ !\brief Returns the offset of the subvector within the underlying vector. // // \return The offset of the subvector. */
ext/include/blaze/blaze/math/views/subvector/SubvectorData.h:169
↓ 63 callers
Function
row
Optional row arguments
ext/include/blaze/blaze/math/expressions/DMatGenExpr.h:817
↓ 63 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/SMatTSMatKronExpr.h:196
↓ 63 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/SMatSMatKronExpr.h:194
↓ 63 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/SMatTSMatMultExpr.h:203
↓ 63 callers
Function
write
ext/include/llvm/Support/Endian.h:97
↓ 62 callers
Function
HasSubstr
ext/src/googletest/googlemock/include/gmock/gmock-matchers.h:4773
↓ 62 callers
Method
blocking
--------------------------------------------------------------- @brief returns if a group/parameter is blocking/positional */
ext/include/clipp/clipp.h:1524
↓ 62 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/SMatTSMatMultExpr.h:213
↓ 62 callers
Function
divAssign
Transpose flag of the right-hand side vector
ext/include/blaze/blaze/math/expressions/Vector.h:912
↓ 62 callers
Method
endswith
endswith - Check if this string ends with the given \p Suffix.
ext/include/llvm/ADT/SmallString.h:134
↓ 62 callers
Method
index
src/projects/pathracer/cached_cursor.hpp:33
↓ 62 callers
Method
insert
src/common/assembly_graph/core/graph_iterators.hpp:207
↓ 62 callers
Function
load
src/common/configs/config_struct.cpp:176
↓ 62 callers
Method
size
src/projects/hpcspades/mpi/pipeline/partask_mpi.hpp:843
↓ 62 callers
Function
size_t
!\brief Conversion operator to the size_t built-in type. // // The conversion operator returns the largest possible size_t value. */
ext/include/blaze/blaze/math/Infinity.h:750
↓ 62 callers
Method
value
Type of the adapted matrix
ext/include/blaze/blaze/math/adaptors/uniuppermatrix/UniUpperElement.h:351
↓ 61 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/TSMatTSMatKronExpr.h:204
↓ 61 callers
Method
columns
Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */
ext/include/blaze/blaze/math/expressions/TSMatSMatKronExpr.h:206
↓ 61 callers
Method
forward
(self, length=1)
ext/src/python_libs/pyyaml3/reader.py:99
↓ 61 callers
Method
insert
src/common/adt/flat_map.hpp:92
↓ 61 callers
Function
isSame
Storage order of the right-hand side matrix
ext/include/blaze/blaze/math/expressions/Matrix.h:1179
↓ 61 callers
Function
load
ext/include/boost/multi_index_container.hpp:1141
↓ 61 callers
Method
log
(self, s)
src/test/teamcity/teamcity_support.py:33
↓ 61 callers
Method
size
src/projects/pathracer/main.cpp:251
↓ 61 callers
Method
size
Size function !\brief Returns the current size/dimension of the vector. // // \return The size of the vector. */
ext/include/blaze/blaze/math/expressions/SVecSVecMultExpr.h:188
↓ 61 callers
Function
smpDivAssign
Transpose flag of the right-hand side vector
ext/include/blaze/blaze/math/smp/hpx/DenseVector.h:576
↓ 61 callers
Function
sort
src/common/utils/parallel/parallel_wrapper.hpp:26
↓ 60 callers
Function
Pointee
ext/src/googletest/googlemock/include/gmock/gmock-matchers.h:4604
↓ 60 callers
Function
_mm_load_si128
Loads 128-bit value. : https://msdn.microsoft.com/en-us/library/atzzad1h(v=vs.80).aspx
ext/include/sse2neon/sse2neon.h:4456
↓ 60 callers
Method
begin
Compile time submatrix arguments
ext/include/blaze/blaze/math/views/submatrix/Dense.h:1118
↓ 60 callers
Method
get
Returns pointer value.
ext/include/cppformat/format.h:1443
↓ 60 callers
Function
list
ext/src/lexy/include/lexy/dsl/list.hpp:133
↓ 60 callers
Function
nonZeros
Storage order of the matrix
ext/include/blaze/blaze/math/expressions/Matrix.h:709
↓ 60 callers
Function
vec_ld
ext/src/zlib-ng/arch/power/fallback_builtins.h:26
↓ 59 callers
Function
abs
Get the absolute value; If *this is < 0 then return -(*this), otherwise *this;
ext/include/llvm/ADT/APInt.h:1857
↓ 59 callers
Method
begin
forward iterator creation methods.
ext/include/llvm/ADT/SmallVector.h:152
↓ 59 callers
Method
isRestricted
Type of the sparse matrix
ext/include/blaze/blaze/math/sparse/MatrixAccessProxy.h:436
↓ 58 callers
Function
SetEnv
Sets an environment variable with the given name to the given value. If the value argument is "", unsets the environment variable. The caller must e
ext/src/googletest/googletest/test/gtest_unittest.cc:1694
↓ 58 callers
Function
_mm_setzero_si128
Sets the 128-bit value to zero https://msdn.microsoft.com/en-us/library/vstudio/ys7dw0kh(v=vs.100).aspx
ext/include/sse2neon/sse2neon.h:5324
↓ 58 callers
Function
clear
Clears region boundaries
ext/include/bamtools/api/BamAux.h:115
↓ 58 callers
Method
color
ext/include/boost/multi_index/detail/ord_index_node.hpp:614
↓ 58 callers
Method
edges
src/common/assembly_graph/core/graph_core.hpp:415
↓ 58 callers
Function
esl_dmatrix_Create
Function: esl_dmatrix_Create() * * Purpose: Creates a general <n> x <m> matrix (<n> rows, <m> * columns). * * Args: <n> - num
ext/src/easel/esl_dmatrix.c:52
↓ 58 callers
Method
get
Get an attribute value by name. Given an attribute 'name' it will get its value. There's always the possibility of using the
src/tools/webvis/pydot.py:663
↓ 58 callers
Method
get
Returns a reference to the value if this is initialized, otherwise, the behaviour is UNDEFINED No-throw
ext/include/boost/optional/detail/old_optional_implementation.hpp:905
↓ 58 callers
Function
isnan
ext/include/boost/core/cmath.hpp:53
↓ 58 callers
Function
p7_omx_Create
Function: p7_omx_Create() * Synopsis: Create an optimized dynamic programming matrix. * Incept: SRE, Tue Nov 27 08:48:20 2007 [Janelia] * * P
ext/src/hmmer/src/impl_vmx/p7_omx.c:62
↓ 58 callers
Method
rows
Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */
ext/include/blaze/blaze/math/expressions/TSMatSMatKronExpr.h:196
↓ 58 callers
Method
size
src/projects/mts/annotation.hpp:95
↓ 58 callers
Method
slice
Return a reference to the substring from [Start, End). \param Start The index of the starting character in the substring; if the index is npos or gre
ext/include/llvm/ADT/SmallString.h:259
↓ 57 callers
Method
IsAttached
src/common/assembly_graph/core/action_handlers.hpp:130
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