DatABEL: File-Based Access to Large Matrices Stored on HDD in Binary Format

Provides an interface to the C++ FILEVECTOR library facilitating analysis using large (giga- to tera-bytes) matrices. Matrix storage is organized in a way that either columns or rows are quickly accessible. DatABEL is primarily aimed to support genome-wide association analyses e.g. using GenABEL, MixABEL and ProbABEL.

AuthorYurii Aulchenko, Stepan Yakovenko, Erik Roos, Marcel Kempenaar, Maksim Struchalin, Lennart C. Karssen
Date of publication2015-03-31 07:46:13
MaintainerLennart Karssen <lennart@karssen.org>
LicenseGPL (>= 2)
Version0.9-6

View on CRAN

Functions

apply2dfo Man page
backingfilename Man page
backingfilename,databel-method Man page
cachesizeMb Man page
cachesizeMb<- Man page
cachesizeMb<-,databel-method Man page
cachesizeMb,databel-method Man page
connect Man page
connect,databel-method Man page
databel Man page
"DatABEL" Man page
databel2matrix Man page
databel2text Man page
databel-class Man page
[<-,databel-method Man page
[,databel-method Man page
DatABEL-package Man page
dim,databel-method Man page
dimnames<-,databel-method Man page
dimnames,databel-method Man page
disconnect Man page
disconnect,databel-method Man page
extract_text_file_columns Man page
get_dimnames Man page
get_dimnames,databel-method Man page
get_temporary_file_name Man page
length,databel-method Man page
make_empty_fvf Man page
matrix2databel Man page
.onLoad Man page
process_lm_output Man page
process_simple_output Man page
save_as Man page
save_as,databel-method Man page
set_dimnames<- Man page
set_dimnames<-,databel-method Man page
setReadOnly<- Man page
setReadOnly<-,databel-method Man page
show,databel-method Man page
sum_NA Man page
sum_not_NA Man page
text2databel Man page

Files

DatABEL
DatABEL/TODO
DatABEL/inst
DatABEL/inst/doc
DatABEL/inst/doc/intro_DatABEL.R
DatABEL/inst/doc/intro_DatABEL.pdf
DatABEL/inst/doc/intro_DatABEL.Rnw
DatABEL/inst/unitTests
DatABEL/inst/unitTests/runit.text2databel.R
DatABEL/inst/unitTests/reportSummary.txt
DatABEL/inst/unitTests/Makefile
DatABEL/inst/unitTests/runit.databel_class.R
DatABEL/inst/unitTests/report.html
DatABEL/inst/unitTests/runit.many_objects.R
DatABEL/inst/unitTests/report.txt
DatABEL/inst/unitTests/mytest_iterator.R
DatABEL/inst/unitTests/runit.NAN_test.R
DatABEL/inst/unitTests/runit.generate_and_read_small_files.R
DatABEL/inst/unitTests/runit.iterator.R
DatABEL/inst/unitTests/runit.apply2dfo.R
DatABEL/inst/unitTests/runit.read_large_file.R
DatABEL/inst/unitTests/shared_functions.R
DatABEL/src
DatABEL/src/AbstractMatrix_R.cpp
DatABEL/src/Makevars
DatABEL/src/RealHandlerWrapper.cpp
DatABEL/src/AbstractMatrix.cpp
DatABEL/src/Transposer.h
DatABEL/src/FileVector.cpp
DatABEL/src/ReusableFileHandle.cpp
DatABEL/src/frutil.cpp
DatABEL/src/dautil.cpp
DatABEL/src/Rstuff.h
DatABEL/src/frversion.h
DatABEL/src/frutil.h
DatABEL/src/FileVector.h
DatABEL/src/Logger.h
DatABEL/src/CastUtils.cpp
DatABEL/src/dautil.h
DatABEL/src/ReusableFileHandle.h
DatABEL/src/FilteredMatrix.cpp
DatABEL/src/FilteredMatrix_R.cpp
DatABEL/src/iterator.cpp
DatABEL/src/const.h
DatABEL/src/iterator_functions.h
DatABEL/src/AbstractMatrix.h
DatABEL/src/CastUtils.h
DatABEL/src/RealHandlerWrapper.h
DatABEL/src/Logger.cpp
DatABEL/src/convert_util.h
DatABEL/src/Transposer.cpp
DatABEL/src/iterator_functions.cpp
DatABEL/src/convert_util.cpp
DatABEL/src/FilteredMatrix.h
DatABEL/NAMESPACE
DatABEL/R
DatABEL/R/databel_class.R DatABEL/R/databel_internal.R DatABEL/R/databel_class_internal.R DatABEL/R/databel2text.R DatABEL/R/databel2matrix.R DatABEL/R/extract_text_file_columns.R DatABEL/R/DatABEL-package.R DatABEL/R/make_empty_fvf.R DatABEL/R/get_temporary_file_name.R DatABEL/R/matrix2databel.R DatABEL/R/apply2dfo_util.R DatABEL/R/text2databel.R DatABEL/R/databel.R DatABEL/R/apply2dfo.R DatABEL/R/zzz.R
DatABEL/vignettes
DatABEL/vignettes/intro_DatABEL.Rnw
DatABEL/MD5
DatABEL/build
DatABEL/build/vignette.rds
DatABEL/DESCRIPTION
DatABEL/ChangeLog
DatABEL/man
DatABEL/man/databel2text.Rd DatABEL/man/get_temporary_file_name.Rd DatABEL/man/extract_text_file_columns.Rd DatABEL/man/databel-class.Rd DatABEL/man/databel2matrix.Rd DatABEL/man/apply2dfo.Rd DatABEL/man/DatABEL-internal.Rd DatABEL/man/matrix2databel.Rd DatABEL/man/process_lm_output.Rd DatABEL/man/text2databel.Rd DatABEL/man/make_empty_fvf.Rd DatABEL/man/DatABEL-package.Rd DatABEL/man/databel.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.