msa-handler 0.1.0

Tool for handling MSA files and mapping residue ids

msa_handler

msa_handler is a Python package that processes multiple sequence alignments (MSAs) and maps aligned residue positions to the original residue numbers using Biopython.

Overview

This package allows you to:

• Parse MSA files in FASTA format.
• For each alignment column, generate objects that include:
  • The sequence header.
  • The aligned amino acid (or gap).
  • The original residue number (None for gaps).

Installation

Ensure you have Python 3.6 or later installed. Install the package using pip:

pip install msa_handler

## Usage

from Bio import AlignIO
from msa_handler import build_msa_columns

alignment = AlignIO.read("your_alignment.fasta", "fasta")
columns = build_msa_columns(alignment)

# Print details of the first column
print(columns[0])

Requirements
Python >= 3.6

Biopython