Big Data Management of Genome-wide Sequencing Variants

Documentation for package ‘SeqArray’ version 1.2.1

SeqArray-package	Big Data Management of Genome-wide Sequencing Variants
alt-method	SeqVarGDSClass
asVCF-method	SeqVarGDSClass
filt-method	SeqVarGDSClass
granges-method	SeqVarGDSClass
qual-method	SeqVarGDSClass
ref-method	SeqVarGDSClass
seqApply	Apply Functions Over Array Margins
SeqArray	Big Data Management of Genome-wide Sequencing Variants
seqClose	Close a SeqArray object
seqClose-method	Close a SeqArray object
seqCompress.Option	Compression Options for Importing VCF File(s)
seqDelete	Delete variables in a Sequencing GDS File
seqExampleFileName	Example GDS file
seqGDS2VCF	Convert to a VCF file
seqGetData	Get Data from a Sequencing GDS file
seqGetFilter	Get the Filter of Samples and Variants
seqInfoNewVar	Add a variable to the INFO field
seqMerge	Merge Multiple Sequencing GDS Files
seqOpen	Open a Sequencing GDS File
seqParallel	Apply Functions in Parallel
seqSetFilter	Set a filter to sample or variant
seqSlidingWindow	Apply functions via a sliding window over variants
seqSummary	Get the summary of a GDS file
seqTranspose	Transpose Data Array
SeqVarGDSClass	SeqVarGDSClass
SeqVarGDSClass-class	SeqVarGDSClass
seqVCF.Header	Parse the header of a VCF file
seqVCF.SampID	Get the sample IDs of a VCF file
seqVCF2GDS	Reformat VCF files