BiocParallel: Bioconductor facilities for parallel evaluation

This package provides modified versions and novel implementation of functions for parallel evaluation, tailored to use with Bioconductor objects.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("BiocParallel")
AuthorBioconductor Package Maintainer [cre], Martin Morgan [aut], Valerie Obenchain [aut], Michel Lang [aut], Ryan Thompson [aut]
Bioconductor views Infrastructure
Date of publicationNone
MaintainerBioconductor Package Maintainer <maintainer@bioconductor.org>
LicenseGPL-2 | GPL-3
Version1.8.2
https://github.com/Bioconductor/BiocParallel

View on Bioconductor

Functions

BatchJobsParam Man page
BatchJobsParam-class Man page
BiocParallel Man page
BiocParallel-package Man page
BiocParallelParam Man page
BiocParallelParam-class Man page
bpaggregate Man page
bpaggregate,ANY,missing-method Man page
bpaggregate,data.frame,BiocParallelParam-method Man page
bpaggregate,formula,BiocParallelParam-method Man page
bpaggregate,matrix,BiocParallelParam-method Man page
bpbackend Man page
bpbackend<- Man page
bpbackend<-,BatchJobsParam Man page
bpbackend,BatchJobsParam-method Man page
bpbackend,DoparParam-method Man page
bpbackend<-,DoparParam,SOCKcluster-method Man page
bpbackend<-,missing,ANY-method Man page
bpbackend,missing-method Man page
bpbackend<-,SnowParam,cluster-method Man page
bpbackend,SnowParam-method Man page
bpcatchErrors Man page
bpcatchErrors<- Man page
bpcatchErrors<-,BiocParallelParam,logical-method Man page
bpcatchErrors,BiocParallelParam-method Man page
bpisup Man page
bpisup,ANY-method Man page
bpisup,BatchJobsParam-method Man page
bpisup,DoparParam-method Man page
bpisup,missing-method Man page
bpisup,MulticoreParam-method Man page
bpisup,SerialParam-method Man page
bpisup,SnowParam-method Man page
bpiterate Man page
bpiterate,ANY,ANY,BatchJobsParam-method Man page
bpiterate,ANY,ANY,BiocParallelParam-method Man page
bpiterate,ANY,ANY,DoparParam-method Man page
bpiterate,ANY,ANY,missing-method Man page
bpiterate,ANY,ANY,SerialParam-method Man page
bpiterate,ANY,ANY,SnowParam-method Man page
bpjobname Man page
bpjobname<- Man page
bpjobname<-,BiocParallelParam,character-method Man page
bpjobname,BiocParallelParam-method Man page
bplapply Man page
bplapply,ANY,BatchJobsParam-method Man page
bplapply,ANY,BiocParallelParam-method Man page
bplapply,ANY,DoparParam-method Man page
bplapply,ANY,list-method Man page
bplapply,ANY,missing-method Man page
bplapply,ANY,SerialParam-method Man page
bplapply,ANY,SnowParam-method Man page
bplasterror Man page
bplog Man page
bplog<- Man page
bplog,BiocParallelParam-method Man page
bplogdir Man page
bplogdir<- Man page
bplogdir<-,SerialParam,character-method Man page
bplogdir,SerialParam-method Man page
bplogdir<-,SnowParam,character-method Man page
bplogdir,SnowParam-method Man page
bplog<-,SerialParam,logical-method Man page
bplog,SerialParam-method Man page
bplog<-,SnowParam,logical-method Man page
bplog,SnowParam-method Man page
bploop Man page
bploop.iterate Man page
bploop.lapply Man page
bploop.MPInode Man page
bploop.SOCK0node Man page
bploop.SOCKnode Man page
bpmapply Man page
bpmapply,ANY,BiocParallelParam-method Man page
bpmapply,ANY,list-method Man page
bpmapply,ANY,missing-method Man page
bpnworkers Man page
bpok Man page
bpparam Man page
bpprogressbar Man page
bpprogressbar<- Man page
bpprogressbar<-,BiocParallelParam,logical-method Man page
bpprogressbar,BiocParallelParam-method Man page
bpresultdir Man page
bpresultdir<- Man page
bpresultdir<-,SnowParam,character-method Man page
bpresultdir,SnowParam-method Man page
bpresume Man page
bpRNGseed Man page
bpRNGseed<- Man page
bpRNGseed,SnowParam-method Man page
bpRNGseed<-,SnowParam,numeric-method Man page
bprunMPIslave Man page
bpschedule Man page
bpschedule,ANY-method Man page
bpschedule,BatchJobsParam-method Man page
bpschedule,missing-method Man page
bpschedule,MulticoreParam-method Man page
bpstart Man page
bpstart,ANY-method Man page
bpstart,BatchJobsParam-method Man page
bpstart,DoparParam-method Man page
bpstart,missing-method Man page
bpstart,SnowParam-method Man page
bpstop Man page
bpstop,ANY-method Man page
bpstop,BatchJobsParam-method Man page
bpstop,DoparParam-method Man page
bpstop,missing-method Man page
bpstopOnError Man page
bpstopOnError<- Man page
bpstopOnError<-,BiocParallelParam,logical-method Man page
bpstopOnError,BiocParallelParam-method Man page
bpstopOnError<-,DoparParam,logical-method Man page
bpstop,SnowParam-method Man page
bptasks Man page
bptasks<- Man page
bptasks,BiocParallelParam-method Man page
bptasks<-,BiocParallelParam,numeric-method Man page
bpthreshold Man page
bpthreshold<- Man page
bpthreshold,BiocParallelParam-method Man page
bpthreshold<-,SerialParam,character-method Man page
bpthreshold<-,SnowParam,character-method Man page
bpthreshold,SnowParam-method Man page
bptimeout Man page
bptimeout<- Man page
bptimeout,BiocParallelParam-method Man page
bptimeout<-,BiocParallelParam,numeric-method Man page
bptry Man page
bpvalidate Man page
bpvec Man page
bpvec,ANY,BiocParallelParam-method Man page
bpvec,ANY,list-method Man page
bpvec,ANY,missing-method Man page
bpvectorize Man page
bpvectorize,ANY,ANY-method Man page
bpvectorize,ANY,missing-method Man page
bpworkers Man page
bpworkers<- Man page
bpworkers,BatchJobsParam-method Man page
bpworkers,BiocParallelParam-method Man page
bpworkers,DoparParam-method Man page
bpworkers,missing-method Man page
bpworkers<-,MulticoreParam,numeric-method Man page
bpworkers,SerialParam-method Man page
bpworkers<-,SnowParam,character-method Man page
bpworkers,SnowParam-method Man page
bpworkers<-,SnowParam,numeric-method Man page
coerce,SOCKcluster,DoparParam-method Man page
coerce,SOCKcluster,SnowParam-method Man page
coerce,spawnedMPIcluster,SnowParam-method Man page
DoparParam Man page
DoparParam-class Man page
MulticoreParam Man page
MulticoreParam-class Man page
multicoreWorkers Man page
print.remote_error Man page
register Man page
registered Man page
SerialParam Man page
SerialParam-class Man page
show,BatchJobsParam-method Man page
show,BiocParallel-method Man page
show,DoparParam-method Man page
show,MulticoreParam-method Man page
show,SnowParam-method Man page
SnowParam Man page
SnowParam-class Man page
snowWorkers Man page

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/AllGenerics.R R/BatchJobsParam-class.R R/BiocParallelParam-class.R R/DoparParam-class.R R/ErrorHandling.R R/MulticoreParam-class.R R/SerialParam-class.R R/SnowParam-class.R R/SnowParam-utils.R R/bpaggregate-methods.R R/bpbackend-methods.R R/bpisup-methods.R R/bpiterate-methods.R R/bplapply-methods.R R/bploop.R R/bpmapply-methods.R R/bpschedule-methods.R R/bpstart-methods.R R/bpstop-methods.R R/bpvalidate.R R/bpvec-methods.R R/bpvectorize-methods.R R/bpworkers-methods.R R/log.R R/progress.R R/register.R R/utilities.R R/zzz.R
README.md
build
build/BiocParallel.pdf
build/vignette.rds
inst
inst/NEWS.Rd
inst/RMPInode.sh
inst/RSOCKnode.sh
inst/doc
inst/doc/Errors_Logs_And_Debugging.R
inst/doc/Errors_Logs_And_Debugging.Rnw
inst/doc/Errors_Logs_And_Debugging.pdf
inst/doc/Introduction_To_BiocParallel.R
inst/doc/Introduction_To_BiocParallel.Rnw
inst/doc/Introduction_To_BiocParallel.pdf
inst/snow
inst/snow/RMPInode.R inst/snow/RSOCKnode.R
inst/unitTests
inst/unitTests/test_BatchJobsParam.R inst/unitTests/test_SnowParam.R inst/unitTests/test_bpaggregate.R inst/unitTests/test_bpiterate.R inst/unitTests/test_bplapply.R inst/unitTests/test_bploop.R inst/unitTests/test_bpmapply.R inst/unitTests/test_bpvalidate.R inst/unitTests/test_bpvec.R inst/unitTests/test_bpvectorize.R inst/unitTests/test_errorhandling.R inst/unitTests/test_logging.R inst/unitTests/test_refclass.R inst/unitTests/test_utilities.R
man
man/BatchJobsParam-class.Rd man/BiocParallel-package.Rd man/BiocParallelParam-class.Rd man/DoparParam-class.Rd man/MulticoreParam-class.Rd man/SerialParam-class.Rd man/SnowParam-class.Rd man/bpaggregate.Rd man/bpiterate.Rd man/bplapply.Rd man/bploop.Rd man/bpmapply.Rd man/bpok.Rd man/bpschedule.Rd man/bptry.Rd man/bpvalidate.Rd man/bpvec.Rd man/bpvectorize.Rd man/register.Rd
tests
tests/test.R
vignettes
vignettes/Errors_Logs_And_Debugging.Rnw
vignettes/Introduction_To_BiocParallel.Rnw

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.