get_aas {surfaltr} | R Documentation

## Create fasta file containing amino acid sequences based on user sequences

### Description

This function creates a fasta file with the transcript ID followed by the amino acid sequence for all inputted and associated primary transcripts. The file is organized so that all transcripts from a gene are next to each other. The function also returns a final table containing the gene names, transcript IDs, APPRIS annotations, and amino acid sequences for each transcript

### Usage

    get_aas(final_pairs, temp = FALSE)

### Arguments

`final_pairs` | A data frame containing gene names, transcript IDs, amino acid sequences, and APPRIS annotations for all inputted data and its corresponding primary transcripts.
`temp` | Boolean indicating if the fasta file should be deleted after the function finishes running or not. Recommended to always be set to FALSE.

### Value

A data frame containing the gene names, transcript IDs, APPRIS annotations, and protein sequences for each transcript.

### Note

This function also creates a fasta file containing the transcript IDs and associated amino acid sequences in the root directory.

[Package surfaltr version 1.0.0 Index]