Bioconductor Release v3.8

CHANGES IN VERSION 1.22.0

UTILITIES

• avoid duplicated meta-information lines in seqVCF2GDS() and seqVCF_Header()
• require >= R_v3.5.0, since reading from connections in text mode is buffered
• seqDigest() requires the digest package
• optimization in reading genotypes from a subset of samples (according to gdsfmt_1.17.5)

NEW FEATURES

• seqSNP2GDS() imports dosage GDS files
• seqVCF_Header() allows a BCF file as an input
• a new function seqRecompress()
• a new function seqCheck() for checking the data integrity of a SeqArray GDS file
• seqGDS2SNP() exports dosage GDS files

BUG FIXES

• seqVCF2GDS() and seqVCF_Header() are able to import site-only VCF files (i.e., VCF with no sample)
• fix seqVCF2GDS() and seqBCF2GDS() since reading from connections in text mode is buffered for R >= v3.5.0