Peptide Library Check

Version: 1.0.0

Commit Hash: 5910a55c223c8b2b9aab4781036bdb81d3e15550

Author: Cauldron Team

Category: utilities

Check if peptides from experimental data are present in a FASTA library by generating tryptic peptides with configurable miss cleavages

Install with Cauldron get_app
README

Peptide Library Check

Installation

⬇️ Click here to install in Cauldron (requires Cauldron to be running)

Repository: https://github.com/noatgnu/peptide-library-check-plugin

Manual installation:

  1. Open Cauldron
  2. Go to Plugins → Install from Repository
  3. Paste: https://github.com/noatgnu/peptide-library-check-plugin
  4. Click Install

ID: peptide-library-check
Version: 1.0.0
Category: utilities
Author: Cauldron Team

Description

Check if peptides from experimental data are present in a FASTA library by generating tryptic peptides with configurable miss cleavages

Runtime

  • Environments: python

  • Entrypoint: library_check_peptide.py

Inputs

Name Label Type Required Default Visibility
file_path Input Peptide File file Yes - Always visible
peptide_column Peptide Sequence Column column Yes - Always visible
fasta_file FASTA Library File file Yes - Always visible
miss_cleavage Missed Cleavages number (min: 0, max: 5) No 2 Always visible
min_length Minimum Peptide Length number (min: 1, max: 50) No 5 Always visible

Input Details

Input Peptide File (file_path)

Tab-separated or CSV file containing experimental peptide data

Peptide Sequence Column (peptide_column)

Column containing peptide sequences to check

FASTA Library File (fasta_file)

FASTA file containing protein sequences to generate tryptic peptide library

Missed Cleavages (miss_cleavage)

Maximum number of missed cleavages to consider when generating tryptic peptides

Minimum Peptide Length (min_length)

Minimum length of peptides to include in the library

Outputs

Name File Type Format Description
peptide_in_library.txt peptide_in_library.txt data Tab-separated file with a "Found" column indicating whether each peptide was found in the FASTA library

Requirements

  • Python Version: >=3.10

Python Dependencies (External File)

Dependencies are defined in: requirements.txt

  • pandas>=2.0.0
  • click>=8.0.0

Note: When you create a custom environment for this plugin, these dependencies will be automatically installed.

Usage

Via UI

  1. Navigate to utilities → Peptide Library Check
  2. Fill in the required inputs
  3. Click Run Analysis

Via Plugin System

const jobId = await pluginService.executePlugin('peptide-library-check', {
  // Add parameters here
});