idba - amd64

Documentation

Binaries

short_sequence_unittest

compile units

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short_sequence_unittest.cpp
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short_sequence.cpp
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sequence.cpp
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compact_sequence.cpp
gtest_main.cc
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gtest-all.cc

includes

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short_sequence_unittest.cpp

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short_sequence.cpp

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sequence.cpp

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compact_sequence.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

hash_table_unittest

compile units

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hash_table_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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hash_table_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

sim_reads_tran

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sim_reads_tran.cpp
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options_description.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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sim_reads_tran.cpp

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options_description.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

histgram_unittest

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histgram_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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histgram_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

split_fq

compile units

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split_fq.cpp
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options_description.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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split_fq.cpp

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options_description.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

parallel_blat

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parallel_blat.cpp
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options_description.cpp
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utils.cpp
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blat_record.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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parallel_blat.cpp

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options_description.cpp

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utils.cpp

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blat_record.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

validate_reads_blat

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validate_reads_blat.cpp
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options_description.cpp
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utils.cpp
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blat_record.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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validate_reads_blat.cpp

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options_description.cpp

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utils.cpp

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blat_record.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

sort_reads

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sort_reads.cpp
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options_description.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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sort_reads.cpp

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options_description.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

validate_rna

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validate_rna.cpp
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options_description.cpp
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utils.cpp
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blat_record.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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validate_rna.cpp

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options_description.cpp

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utils.cpp

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blat_record.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

validate_component

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validate_component.cpp
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options_description.cpp
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utils.cpp
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blat_record.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp
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sequence_writer.cpp

includes

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validate_component.cpp

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options_description.cpp

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utils.cpp

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blat_record.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

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sequence_writer.cpp

libraries


manual

fa2fq

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fa2fq.cpp
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options_description.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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fa2fq.cpp

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options_description.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

hash_map_unittest

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hash_map_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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hash_map_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

sim_reads

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sim_reads.cpp
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options_description.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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sim_reads.cpp

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options_description.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

parallel_rna_blat

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parallel_rna_blat.cpp
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options_description.cpp
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utils.cpp
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blat_record.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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parallel_rna_blat.cpp

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options_description.cpp

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utils.cpp

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blat_record.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

hash_set_unittest

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hash_set_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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hash_set_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

idba_ud

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idba_ud.cpp
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hash_aligner.cpp
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options_description.cpp
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log.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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hash_graph.cpp
scaffold_graph.cpp
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contig_graph.cpp
hash_graph_branch_group.cpp
local_assembler.cpp
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assembly_utility.cpp
math.cpp
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short_sequence.cpp
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sequence_reader.cpp
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contig_graph_branch_group.cpp

includes

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idba_ud.cpp

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hash_aligner.cpp

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options_description.cpp

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log.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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hash_graph.cpp

scaffold_graph.cpp

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contig_graph.cpp

hash_graph_branch_group.cpp

local_assembler.cpp

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assembly_utility.cpp

math.cpp

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short_sequence.cpp

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sequence_reader.cpp

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contig_graph_branch_group.cpp

libraries


manual

kmer_unittest

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kmer_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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kmer_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

atomic_integer_unittest

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atomic_integer_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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atomic_integer_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

sequence_unittest

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sequence_unittest.cpp
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short_sequence.cpp
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sequence.cpp
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compact_sequence.cpp
gtest_main.cc
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gtest-all.cc

includes

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sequence_unittest.cpp

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short_sequence.cpp

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sequence.cpp

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compact_sequence.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

fq2fa

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fq2fa.cpp
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options_description.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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fq2fa.cpp

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options_description.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

bit_edges_unittest

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bit_edges_unittest.cpp
gtest_main.cc
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gtest-all.cc

includes

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bit_edges_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

sample_reads

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sample_reads.cpp
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options_description.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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sample_reads.cpp

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options_description.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

sort_psl

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sort_psl.cpp
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options_description.cpp
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blat_record.cpp
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utils.cpp

includes

sort_psl.cpp

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options_description.cpp

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blat_record.cpp

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utils.cpp

libraries


manual

print_graph

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print_graph.cpp
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options_description.cpp
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sequence_io.cpp
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sequence.cpp
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hash_graph.cpp
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contig_graph.cpp
hash_graph_branch_group.cpp
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utils.cpp
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short_sequence.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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contig_graph_branch_group.cpp

includes

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print_graph.cpp

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options_description.cpp

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sequence_io.cpp

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sequence.cpp

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hash_graph.cpp

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contig_graph.cpp

hash_graph_branch_group.cpp

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utils.cpp

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short_sequence.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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contig_graph_branch_group.cpp

libraries


manual

test

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test.cpp
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contig_graph.cpp
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sequence.cpp
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contig_graph_branch_group.cpp

includes

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test.cpp

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contig_graph.cpp

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sequence.cpp

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contig_graph_branch_group.cpp

libraries


manual

idba_hybrid

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idba_hybrid.cpp
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hash_aligner.cpp
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options_description.cpp
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log.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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hash_graph.cpp
scaffold_graph.cpp
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contig_graph.cpp
hash_graph_branch_group.cpp
local_assembler.cpp
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assembly_utility.cpp
math.cpp
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short_sequence.cpp
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sequence_reader.cpp
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contig_graph_branch_group.cpp

includes

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idba_hybrid.cpp

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hash_aligner.cpp

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options_description.cpp

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log.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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hash_graph.cpp

scaffold_graph.cpp

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contig_graph.cpp

hash_graph_branch_group.cpp

local_assembler.cpp

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assembly_utility.cpp

math.cpp

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short_sequence.cpp

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sequence_reader.cpp

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contig_graph_branch_group.cpp

libraries


manual

raw_n50

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raw_n50.cpp
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options_description.cpp
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utils.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp
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sequence_writer.cpp

includes

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raw_n50.cpp

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options_description.cpp

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utils.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

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sequence_writer.cpp

libraries


manual

idba

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idba.cpp
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hash_aligner.cpp
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options_description.cpp
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log.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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hash_graph.cpp
scaffold_graph.cpp
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contig_graph.cpp
hash_graph_branch_group.cpp
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assembly_utility.cpp
math.cpp
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short_sequence.cpp
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sequence_reader.cpp
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contig_graph_branch_group.cpp

includes

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idba.cpp

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hash_aligner.cpp

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options_description.cpp

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log.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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hash_graph.cpp

scaffold_graph.cpp

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contig_graph.cpp

hash_graph_branch_group.cpp

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assembly_utility.cpp

math.cpp

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short_sequence.cpp

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sequence_reader.cpp

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contig_graph_branch_group.cpp

libraries


manual

managed_list_unittest

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managed_list_unittest.cpp
gtest_main.cc
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gtest-all.cc

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managed_list_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

split_fa

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split_fa.cpp
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options_description.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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split_fa.cpp

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options_description.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

compact_sequence_unittest

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compact_sequence_unittest.cpp
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short_sequence.cpp
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sequence.cpp
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compact_sequence.cpp
gtest_main.cc
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gtest-all.cc

includes

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compact_sequence_unittest.cpp

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short_sequence.cpp

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sequence.cpp

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compact_sequence.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

split_scaffold

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split_scaffold.cpp
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options_description.cpp
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utils.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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split_scaffold.cpp

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options_description.cpp

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utils.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

idba_tran

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idba_tran.cpp
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hash_aligner.cpp
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options_description.cpp
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log.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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hash_graph.cpp
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contig_graph.cpp
hash_graph_branch_group.cpp
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contig_info.cpp
local_assembler.cpp
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assembly_utility.cpp
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short_sequence.cpp
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sequence_reader.cpp
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contig_graph_branch_group.cpp

includes

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idba_tran.cpp

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hash_aligner.cpp

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options_description.cpp

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log.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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hash_graph.cpp

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contig_graph.cpp

hash_graph_branch_group.cpp

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contig_info.cpp

local_assembler.cpp

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assembly_utility.cpp

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short_sequence.cpp

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sequence_reader.cpp

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contig_graph_branch_group.cpp

libraries


manual

filter_contigs

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filter_contigs.cpp
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options_description.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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filter_contigs.cpp

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options_description.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

vertex_status_unittest

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vertex_status_unittest.cpp
gtest_main.cc
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gtest-all.cc

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vertex_status_unittest.cpp

gtest_main.cc

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gtest-all.cc

libraries


manual

scaffold

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scaffold.cpp
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hash_aligner.cpp
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options_description.cpp
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utils.cpp
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sequence_io.cpp
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sequence.cpp
scaffold_graph.cpp
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contig_graph.cpp
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assembly_utility.cpp
math.cpp
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short_sequence.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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contig_graph_branch_group.cpp
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hash_graph.cpp
hash_graph_branch_group.cpp

includes

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scaffold.cpp

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hash_aligner.cpp

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options_description.cpp

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utils.cpp

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sequence_io.cpp

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sequence.cpp

scaffold_graph.cpp

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contig_graph.cpp

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assembly_utility.cpp

math.cpp

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short_sequence.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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contig_graph_branch_group.cpp

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hash_graph.cpp

hash_graph_branch_group.cpp

libraries


manual

validate_contigs_blat

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validate_contigs_blat.cpp
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options_description.cpp
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utils.cpp
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blat_record.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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validate_contigs_blat.cpp

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options_description.cpp

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utils.cpp

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blat_record.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

filterfa

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filterfa.cpp
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options_description.cpp
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sequence_reader.cpp
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sequence_writer.cpp
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sequence.cpp

includes

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filterfa.cpp

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options_description.cpp

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sequence_reader.cpp

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sequence_writer.cpp

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sequence.cpp

libraries


manual

shuffle_reads

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shuffle_reads.cpp
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options_description.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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utils.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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shuffle_reads.cpp

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options_description.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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utils.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

idba_tran_test

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idba_tran_test.cpp
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hash_aligner.cpp
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options_description.cpp
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log.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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hash_graph.cpp
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contig_graph.cpp
hash_graph_branch_group.cpp
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contig_info.cpp
local_assembler.cpp
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assembly_utility.cpp
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short_sequence.cpp
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sequence_reader.cpp
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contig_graph_branch_group.cpp

includes

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idba_tran_test.cpp

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hash_aligner.cpp

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options_description.cpp

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log.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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hash_graph.cpp

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contig_graph.cpp

hash_graph_branch_group.cpp

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contig_info.cpp

local_assembler.cpp

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assembly_utility.cpp

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short_sequence.cpp

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sequence_reader.cpp

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contig_graph_branch_group.cpp

libraries


manual

validate_contigs_mummer

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validate_contigs_mummer.cpp
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options_description.cpp
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utils.cpp
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sequence_writer.cpp
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sequence_io.cpp
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sequence.cpp
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short_sequence.cpp
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sequence_reader.cpp

includes

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validate_contigs_mummer.cpp

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options_description.cpp

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utils.cpp

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sequence_writer.cpp

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sequence_io.cpp

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sequence.cpp

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short_sequence.cpp

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sequence_reader.cpp

libraries


manual

filter_blat

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filter_blat.cpp
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options_description.cpp
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utils.cpp
unassigned
blat_record.cpp

includes

unassigned

filter_blat.cpp

unassigned

options_description.cpp

unassigned

utils.cpp

unassigned

blat_record.cpp

libraries


manual