BinaryDosage 2.0.0

• Removed CXX_STD = CXX11 from src/Makevars; the package now builds with the default C++17 standard.
• Added Format 5 binary dosage files, a new format using per-SNP gzip compression and a companion RDS metadata file (.bdinfo).
  • vcftobd5() — convert a bgzipped VCF file to Format 5.
  • getbd5info() — load and validate a Format 5 file pair.
  • getbd5snp() — read a single SNP from a Format 5 file by index or ID.
• Added vcftobd() as the new recommended function for converting VCF files to binary dosage format (requires the vcfppR package). The previous vcftobd() has been renamed to vcftobdlegacy() and emits a deprecation message.
• Added updatebd() to convert any legacy binary dosage file (formats 1–4) to Format 5.
• Added subsetbd() to create a new Format 5 file containing a subset of SNPs and/or subjects from any binary dosage file (formats 1–5). Filtering options: minimum MAF, SNP location vector, SNP location range, and subject ID vector.
• Added mergebd() to merge two or more Format 5 files into a single Format 5 file. Automatically performs a subject merge (unique subjects, common SNPs) or a SNP merge (unique SNPs, common subjects) depending on the input files.
• Extended getsnp() and bdapply() to support Format 5 files.

BinaryDosage 1.0.0

First release version.

BinaryDosage 0.0.0.9000

• Added a NEWS.md file to track changes to the package.