Get Database Information

Source: R/db-index.R

Returns information about a misha genome database including format, number of chromosomes, total genome size, and whether it uses the indexed format.

gdb.info(groot = NULL)

Arguments

groot

Root directory of the database. If NULL, uses the currently active database.

Value

A list with database information:

  • path - Full path to the database

  • is_db - TRUE if this is a valid misha database

  • format - "indexed" or "per-chromosome"

  • num_chromosomes - Number of chromosomes/contigs

  • genome_size - Total length of genome in bases

  • chromosomes - Data frame with chromosome names and sizes

Examples

if (FALSE) { # \dontrun{
# Get info about currently active database
info <- gdb.info()
cat("Database format:", info$format, "\n")
cat("Genome size:", info$genome_size / 1e6, "Mb\n")

# Get info about specific database
info <- gdb.info("/path/to/database")
} # }