LDExplorer: Efficient Whole-Genome LD Based Haplotpe Block Recognition
Version 1.0.3

LDExplorer is an R package for the memory and time efficient whole-genome LD based haplotype block recognition.

AuthorDaniel Taliun <Daniel.Taliun@eurac.edu>, Johann Gamper<gamper@inf.unibz.it>, Cristian Pattaro <Cristian.Pattaro@eurac.edu>
Date of publication2013-11-25 10:11:40
MaintainerDaniel Taliun <Daniel.Taliun@eurac.edu>
LicenseGPL (>=3)
Version1.0.3
Package repositoryView on R-Forge
InstallationInstall the latest version of this package by entering the following in R:
install.packages("LDExplorer", repos="http://R-Forge.R-project.org")

Popular man pages

create_browser_track: BED file generation for UCSC and Ensembl genome browsers.
ld: Linkage disequilibrium (LD) computation from phased data
mig: Memory-efficient Implementation of Gabriel et al. 2002...
mig_multi_chr: Memory-efficient Implementation of Gabriel et al. 2002...
mig_multi_regions: Memory-efficient Implementation of Gabriel et al. 2002...
mig_rsq: Memory-efficient Implementation of Gabriel et al. 2002...
See all...

All man pages Function index File listing

Man pages

create_browser_track: BED file generation for UCSC and Ensembl genome browsers.
ld: Linkage disequilibrium (LD) computation from phased data
mig: Memory-efficient Implementation of Gabriel et al. 2002...
mig_multi_chr: Memory-efficient Implementation of Gabriel et al. 2002...
mig_multi_regions: Memory-efficient Implementation of Gabriel et al. 2002...
mig_rsq: Memory-efficient Implementation of Gabriel et al. 2002...

Functions

create_browser_track Man page Source code
ld Man page Source code
mig Man page Source code
mig_multi_chr Man page Source code
mig_multi_regions Man page Source code
mig_rsq Man page Source code

Files

COPYING
DESCRIPTION
NAMESPACE
R
R/CREATE_BROWSER_TRACK.R
R/LD.R
R/MIG.R
R/MIG_MULTI_CHR.R
R/MIG_MULTI_REGIONS.R
R/MIG_RSQ.R
inst
inst/doc
inst/doc/1000G_phase1_v3_20101123_CEU_chr2_89153688_89307566.vcf.gz
inst/doc/HapMapII_r22_CEU_chr20_31767872_33700401.legend.txt.gz
inst/doc/HapMapII_r22_CEU_chr20_31767872_33700401.phase.gz
man
man/create_browser_track.Rd
man/ld.Rd
man/mig.Rd
man/mig_multi_chr.Rd
man/mig_multi_regions.Rd
man/mig_rsq.Rd
src
src/LDExplorer.cpp
src/LDExplorer.h
src/Makevars
src/Makevars.win
src/algorithms
src/algorithms/Algorithm.cpp
src/algorithms/AlgorithmFactory.cpp
src/algorithms/AlgorithmMIG.cpp
src/algorithms/AlgorithmMIGP.cpp
src/algorithms/AlgorithmMIGPP.cpp
src/algorithms/CI.cpp
src/algorithms/CIAV.cpp
src/algorithms/CIFactory.cpp
src/algorithms/CIWP.cpp
src/algorithms/LD.cpp
src/algorithms/Makefile
src/algorithms/Partition.cpp
src/algorithms/include
src/algorithms/include/Algorithm.h
src/algorithms/include/AlgorithmFactory.h
src/algorithms/include/AlgorithmMIG.h
src/algorithms/include/AlgorithmMIGP.h
src/algorithms/include/AlgorithmMIGPP.h
src/algorithms/include/CI.h
src/algorithms/include/CIAV.h
src/algorithms/include/CIFactory.h
src/algorithms/include/CIWP.h
src/algorithms/include/LD.h
src/algorithms/include/Partition.h
src/auxiliary
src/auxiliary/Makefile
src/auxiliary/auxiliary.cpp
src/auxiliary/include
src/auxiliary/include/auxiliary.h
src/db
src/db/Db.cpp
src/db/DbView.cpp
src/db/Makefile
src/db/Unique.cpp
src/db/include
src/db/include/Db.h
src/db/include/DbView.h
src/db/include/Unique.h
src/exception
src/exception/Exception.cpp
src/exception/Makefile
src/exception/include
src/exception/include/Exception.h
src/reader
src/reader/GzipReader.cpp
src/reader/Makefile
src/reader/Reader.cpp
src/reader/ReaderFactory.cpp
src/reader/TextReader.cpp
src/reader/include
src/reader/include/GzipReader.h
src/reader/include/Reader.h
src/reader/include/ReaderFactory.h
src/reader/include/TextReader.h
src/writer
src/writer/GzipWriter.cpp
src/writer/Makefile
src/writer/TextWriter.cpp
src/writer/Writer.cpp
src/writer/WriterFactory.cpp
src/writer/include
src/writer/include/GzipWriter.h
src/writer/include/TextWriter.h
src/writer/include/Writer.h
src/writer/include/WriterFactory.h
src/zlib
src/zlib/Makefile
src/zlib/adler32.c
src/zlib/compress.c
src/zlib/crc32.c
src/zlib/crc32.h
src/zlib/deflate.c
src/zlib/deflate.h
src/zlib/gzclose.c
src/zlib/gzguts.h
src/zlib/gzlib.c
src/zlib/gzread.c
src/zlib/gzwrite.c
src/zlib/infback.c
src/zlib/inffast.c
src/zlib/inffast.h
src/zlib/inffixed.h
src/zlib/inflate.c
src/zlib/inflate.h
src/zlib/inftrees.c
src/zlib/inftrees.h
src/zlib/trees.c
src/zlib/trees.h
src/zlib/uncompr.c
src/zlib/zconf.h
src/zlib/zlib.h
src/zlib/zutil.c
src/zlib/zutil.h
LDExplorer documentation built on May 21, 2017, 3:26 a.m.

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