readFASTA {Rcpi} | R Documentation

## Read Protein Sequences in FASTA Format

### Description

Read Protein Sequences in FASTA Format

### Usage

    readFASTA(file = system.file("protseq/P00750.fasta", package = "Rcpi"),
      legacy.mode = TRUE, seqonly = FALSE)

### Arguments

`file` | The name of the file which the sequences in fasta format are to be read from. If it does not contain an absolute or relative path, the file name is relative to the current working directory, `getwd`. The default here is to read the `P00750.fasta` file which is present in the `protseq` directory of the Rcpi package.
`legacy.mode` | If set to `TRUE`, lines starting with a semicolon ';' are ignored. Default value is `TRUE`.
`seqonly` | If set to `TRUE`, only sequences as returned without attempt to modify them or to get their names and annotations (execution time is divided approximately by a factor 3). Default value is `FALSE`.

### Details

This function reads protein sequences in FASTA format.

### Value

The result character vector

### Note

Note that any different sets of instances (chunklets), e.g. 1, 3, 7 and 4, 6, might belong to the same class and might belong to different classes.

### Author(s)

Nan Xiao <https://nanx.me>

### References

Pearson, W.R. and Lipman, D.J. (1988) Improved tools for biological sequence comparison. Proceedings of the National Academy of Sciences of the United States of America, 85: 2444-2448

### See Also

See `readPDB` for reading protein sequences in PDB format.

### Examples

    P00750 = readFASTA(system.file('protseq/P00750.fasta', package = 'Rcpi'))
    P00750

[Package Rcpi version 1.30.0 Index]