filter_residues

This function counts the number of specified residues in each peptide sequence
and filters out the ones with more than the specified limit. It's defaults is
for filtering out small alliphatic residues.

This toolkit is designed for manipulation and analysis of peptides. It provides functionalities to assist researchers in peptide engineering and proteomics. Users can manipulate peptides by adding amino acids at every position, count occurrences of each amino acid at each position, and transform amino acid counts based on probabilities. The package offers functionalities to select the best versus the worst peptides and analyze these peptides, which includes counting specific residues, reducing peptide sequences, extracting features through One Hot Encoding (OHE), and utilizing Quantitative Structure-Activity Relationship (QSAR) properties (based in the package 'Peptides' by Osorio et al. (2015) <doi:10.32614/RJ-2015-001>). This package is intended for both researchers and bioinformatics enthusiasts working on peptide-based projects, especially for their use with machine learning.

Josep-Ramon Codina

peptoolkit

A Toolkit for Using Peptide Sequences in Machine Learning

filter_residues function

<dl><dt>df</dt>
<dd>A data frame containing peptide sequences.</dd>
<dt>sequence_col</dt>
<dd>The name of the column that contains the sequences.</dd>
<dt>residues</dt>
<dd>A character vector of residues to count.</dd>
<dt>max_residues</dt>
<dd>The maximum number of allowed residues.</dd></dl>

Arguments

Filter Peptides by Residue Counts — filter_residues

<dl>

<dt>df</dt>
<dd>A data frame containing peptide sequences.</dd>


<dt>sequence_col</dt>
<dd>The name of the column that contains the sequences.</dd>


<dt>residues</dt>
<dd>A character vector of residues to count.</dd>


<dt>max_residues</dt>
<dd>The maximum number of allowed residues.</dd>

</dl>

filter_residues: Filter Peptides by Residue Counts

Description

Usage

Value

Arguments

Examples