Read sequence index
read_seq_len(file)read_fai(file, col_names = def_names("fai"), col_types = def_types("fai"), ...)
tibble with sequence information
tibble with sequence information
with sequence length information
Either TRUE, FALSE or a character vector
of column names.
If TRUE, the first row of the input will be used as the column
names, and will not be included in the data frame. If FALSE, column
names will be generated automatically: X1, X2, X3 etc.
If col_names is a character vector, the values will be used as the
names of the columns, and the first row of the input will be read into
the first row of the output data frame.
Missing (NA) column names will generate a warning, and be filled
in with dummy names ...1, ...2 etc. Duplicate column names
will generate a warning and be made unique, see name_repair to control
how this is done.
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
read_seq_len(): read seqs from a single file_name in fasta, gbk or gff3 format.
read_fai(): read seqs from a single file in seqkit/samtools fai format.