If genome is a BSgenome
(from the package BioStrings
), it will transform it into a GRanges
with chromosomes and chromosome lengths.If genome is a data.frame
with 3 columns, it will transform it into a GRanges.
If genome is a data.frame
with 2 columns, it will assume the first is the chromosome, the second is the length of the chromosomes and will add 1 as start.
If genome is a character
string uniquely identifying a BSgenome
installed in the system (e.g. "hg19", "mm10",... but not "hg"), it will create a genome based on the BSgenome
object identified by the character string.
If genome is a GRanges
object, it will return it as is.
If genome is non of the above, it will give a warning and try to transform it into a GRanges using toGRanges. This can be helpful if genome
is a connection to a file.