GenomicFiles: Distributed computing by file or by range

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This package provides infrastructure for parallel computations distributed 'by file' or 'by range'. User defined MAPPER and REDUCER functions provide added flexibility for data combination and manipulation.

Author
Bioconductor Package Maintainer [aut, cre], Valerie Obenchain [aut], Michael Love [aut], Lori Shepherd [aut], Martin Morgan [aut]
Date of publication
None
Maintainer
Bioconductor Package Maintainer <maintainer@bioconductor.org>
License
Artistic-2.0
Version
1.10.3

View on Bioconductor

Man pages

GenomicFiles-class
GenomicFiles objects
GenomicFiles-deprecated
Deprecated functions in package 'GenomicFiles'
pack-methods
Range transformations of a 'GenomicRanges' object for optimal...
reduceByFile-methods
Parallel computations by files
reduceByRange-methods
Parallel computations by ranges
reduceByYield
Iterate through a BAM (or other) file, reducing output to a...
registry-utils
Functions for creating and searching a registry of file...
unpack-methods
Un-pack results obtained with a pack()ed group of ranges
VcfStack-class
VcfStack and RangedVcfStack Objects

Files in this package

GenomicFiles/DESCRIPTION
GenomicFiles/NAMESPACE
GenomicFiles/NEWS
GenomicFiles/R
GenomicFiles/R/GenomicFiles-class.R
GenomicFiles/R/VcfStack-class.R
GenomicFiles/R/pack-methods.R
GenomicFiles/R/reduceByFile-methods.R
GenomicFiles/R/reduceByRange-methods.R
GenomicFiles/R/reduceByYield.R
GenomicFiles/R/reduceFiles.R
GenomicFiles/R/reduceRanges.R
GenomicFiles/R/registry.R
GenomicFiles/R/unpack-methods.R
GenomicFiles/R/zzz.R
GenomicFiles/README.md
GenomicFiles/build
GenomicFiles/build/vignette.rds
GenomicFiles/inst
GenomicFiles/inst/doc
GenomicFiles/inst/doc/GenomicFiles.R
GenomicFiles/inst/doc/GenomicFiles.Rnw
GenomicFiles/inst/doc/GenomicFiles.pdf
GenomicFiles/inst/extdata
GenomicFiles/inst/extdata/CEUtrio_11.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_11.vcf.bgz.tbi
GenomicFiles/inst/extdata/CEUtrio_20.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_20.vcf.bgz.tbi
GenomicFiles/inst/extdata/CEUtrio_21.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_21.vcf.bgz.tbi
GenomicFiles/inst/extdata/CEUtrio_22.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_22.vcf.bgz.tbi
GenomicFiles/inst/extdata/CEUtrio_7.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_7.vcf.bgz.tbi
GenomicFiles/inst/extdata/CEUtrio_X.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_X.vcf.bgz.tbi
GenomicFiles/inst/extdata/CEUtrio_Y.vcf.bgz
GenomicFiles/inst/extdata/CEUtrio_Y.vcf.bgz.tbi
GenomicFiles/inst/extdata/seqinfo.rds
GenomicFiles/inst/scripts
GenomicFiles/inst/scripts/methods-FileManager.R
GenomicFiles/inst/unitTests
GenomicFiles/inst/unitTests/test_GenomicFiles-class.R
GenomicFiles/inst/unitTests/test_VcfStack-class.R
GenomicFiles/inst/unitTests/test_pack-methods.R
GenomicFiles/inst/unitTests/test_reduceByFile-methods.R
GenomicFiles/inst/unitTests/test_reduceByRange-methods.R
GenomicFiles/man
GenomicFiles/man/GenomicFiles-class.Rd
GenomicFiles/man/GenomicFiles-deprecated.Rd
GenomicFiles/man/VcfStack-class.Rd
GenomicFiles/man/pack-methods.Rd
GenomicFiles/man/reduceByFile-methods.Rd
GenomicFiles/man/reduceByRange-methods.Rd
GenomicFiles/man/reduceByYield.Rd
GenomicFiles/man/registry-utils.Rd
GenomicFiles/man/unpack-methods.Rd
GenomicFiles/tests
GenomicFiles/tests/GenomicFiles_unit_tests.R
GenomicFiles/vignettes
GenomicFiles/vignettes/GenomicFiles.Rnw
GenomicFiles/vignettes/reduceByFile_flow.png
GenomicFiles/vignettes/reduceByRange_flow.png