BED files use 0-based coordinate starts, while gggenomes uses 1-based start coordinates. BED file coordinates are therefore transformed into 1-based coordinates during import.
read_bed(file, col_names = def_names("bed"), col_types = def_types("bed"), ...)tibble
Either a path to a file, a connection, or literal data (either a single string or a raw vector).
Files ending in .gz, .bz2, .xz, or .zip will
be automatically uncompressed. Files starting with http://,
https://, ftp://, or ftps:// will be automatically
downloaded. Remote gz files can also be automatically downloaded and
decompressed.
Literal data is most useful for examples and tests. To be recognised as
literal data, the input must be either wrapped with I(), be a string
containing at least one new line, or be a vector containing at least one
string with a new line.
Using a value of clipboard() will read from the system clipboard.
column names to use. Defaults to def_names("bed")
compatible with canonical bed files. def_names() can easily be
combined with extra columns: col_names = c(def_names("bed"), "more", "things").
One of NULL, a cols() specification, or
a string. See vignette("readr") for more details.
If NULL, all column types will be inferred from guess_max rows of the
input, interspersed throughout the file. This is convenient (and fast),
but not robust. If the guessed types are wrong, you'll need to increase
guess_max or supply the correct types yourself.
Column specifications created by list() or cols() must contain
one column specification for each column. If you only want to read a
subset of the columns, use cols_only().
Alternatively, you can use a compact string representation where each character represents one column:
c = character
i = integer
n = number
d = double
l = logical
f = factor
D = date
T = date time
t = time
? = guess
_ or - = skip
By default, reading a file without a column specification will print a
message showing what readr guessed they were. To remove this message,
set show_col_types = FALSE or set options(readr.show_col_types = FALSE).
additional parameters, passed to read_tsv