seqDigest: Hash function digests
In SeqArray: Data management of large-scale whole-genome sequence variant calls

Description Usage Arguments Details Value Author(s) See Also Examples

Create hash function digests for all or a subset of data

1	seqDigest(gdsfile, varname, algo=c("md5"), verbose=FALSE)

`gdsfile`	a `SeqVarGDSClass` object
`varname`	the variable name(s), see details
`algo`	the digest hash algorithm: "md5"
`verbose`	if `TRUE`, show progress information

The variable name should be "sample.id", "variant.id", "position", "chromosome", "allele", "annotation/id", "annotation/qual", "annotation/filter", "annotation/info/VARIABLE_NAME", or "annotation/format/VARIABLE_NAME".

Users can define a subset of data via seqSetFilter and create a hash digest for the subset only.

A hash character.

Xiuwen Zheng

seqSetFilter, seqApply

# the GDS file
(gds.fn <- seqExampleFileName("gds"))

# display
f <- seqOpen(gds.fn)

seqDigest(f, "genotype")
seqDigest(f, "annotation/filter")
seqDigest(f, "annotation/format/DP")

# close the GDS file
seqClose(f)