TGS-GapCloser
A gap-closing software tool that uses long reads to enhance genome assembly.
File Explorer
- AlignReuslt.h
- NeedlemanWunsch.h
- ScoreMatrix.h
- ScoreSchemes.h
- SmithWaterman.h
- SmithWaterman_test.cpp
- bi_list.h
- bi_list_test.cpp
- collection.h
- collection_test.cpp
- disjoin_set.cpp
- disjoin_set.h
- distribution.h
- distribution_test.cpp
- fib_heap.h
- fib_heap_test.cpp
- DepthSearch.h
- Graph.h
- GraphBasic.h
- GraphBasic_test.cpp
- GraphTest.cpp
- GraphTipRemove.h
- GraphTipRemove_test.cpp
- GraphTrunk.h
- GraphTrunk_test.cpp
- MinTree.h
- MinTree_test.cpp
- SPFSearch.h
- SPFSearch_test.cpp
- incr_array.h
- incr_array_test.cpp
- Interval.h
- Interval_test.cpp
- Linear.h
- Minimum_multiplication.h
- Minimum_multiplication_test.cpp
- MultiKeyHash.h
- common.h
- AlignMinimap2.h
- contigPairInfo.cpp
- contigPairInfo.h
- fileName.h
- NonRepeatFilter.h
- NonRepeatFilter_test.cpp
- ONT2Gap.cpp
- ONT2Gap.h
- ScaffInfo.cpp
- ScaffInfo.h
- SmithWaterman_OO.h
- SubSets.h
- SubSets_test.cpp
- align_result.cpp
- align_result.h
- fasta.cpp
- fasta.h
- fasta_test.cpp
- fastq.cpp
- fastq.h
- fastq_test.cpp
- PAF.cpp
- PAF.h
- pair_sam_parser.cpp
- pair_sam_parser.h
- .gitignore
- sam_parser.cpp
- sam_parser.h
- sam_parser_test.cpp
- seq.cpp
- seq.h
- seq_test.cpp
- tool_func.h
- argsparser.cpp
- argsparser.h
- argsparser_test.cpp
- Error.h
- .gitignore
- file_reader.cpp
- file_reader.h
- file_test.cpp
- file_writer.cpp
- file_writer.h
- gzstream.cpp
- gzstream.h
- flags.h
- freq.h
- log.cpp
- log.h
- logfilter.cpp
- logfilter.h
- MiddleValid.h
- Job.h
- JobQueue.h
- MultiThread.h
- mapHelper.h
- stringtools.cpp
- stringtools.h
- stringtools_test.cpp
- Check.h
- Test.h
- timetools.cpp
- timetools.h
- timetools_test.cpp
- DiffONTPilon.cpp
- filter_gap_filler.sh
- gen_subont.awk
- ONTGapCorrecter.cpp
- ONTGapDev01.cpp
- ORGC.cpp
- samSQ_filter.awk
- samSQ_filter.c
- samSQ_filter.cpp
- SplitScaff2NamedContig.cpp
- TGSFiller_pipeline.sh
- TGSFiller_pipelineP.sh
- TGSFiller_racon.sh
- input.scaff.fasta
- ngs.reads.fastq
- ont.reads.fasta
- README.md
- GenMake.sh
- Makefile
- tgsgapcandidate.cpp
- tgsgapcloser.cpp
- tgsseqgen.cpp
- tgsseqsplit.cpp
- Contig100K.cpp
- ExtractFakeFill.cpp
- ExtractRealFill.awk
- FakeRef2Scaff.cpp
- GenMake.sh
- Makefile
- Ref2Gap.cpp
- contigPairInfo.cpp
- contigPairInfo.h
- filter_oo.py
- Makefile
- ONT_contigmapper.cpp
- ONT_OrientationCorrecter.cpp
- ONT_OrientationCorrecterV1.cpp
- ONT_OrientationCorrecterV2.cpp
- ONT_OrientationCorrecterV3.cpp
- OOChecker.cpp
- pipeline.sh
- Quast2OO.cpp
- README.md
- ScaffInfo.cpp
- ScaffInfo.h
- TriContigDetect.cpp
- Makefile
- test.cpp
- .gitignore
- .gitmodules
- LICENSE
- Makefile
- minimap2
- README.md
- tgsgapcloser
# Use via CDN
jsDelivrjsDelivr serves any public GitHub repository as a CDN with zero setup. Pick a version and a file to get a ready-to-paste link and snippet.
Command Glossary
Commands referenced in this DOCs, explained below.
git clone
View Details ▼
git clone
Clone an existing repository.
git clone {{remote_repository_location}} {{path/to/directory}}
Clone an existing repository into a new directory (the default directory is the repository name):
git clone --recursive {{remote_repository_location}}
Clone an existing repository and its submodules:
git clone {{[-n|--no-checkout]}} {{remote_repository_location}}
Clone only the `.git` directory of an existing repository:
git submodule
View Details ▼
git submodule
Inspect, update, and manage submodules.
git submodule
View existing submodules and the checked-out commit for each one:
git submodule update --init --recursive
Install a repository's submodules (listed in `.gitmodules`):
git submodule add {{repository_url}}
Add a Git repository as a submodule of the current one: