fasta_sequence_retrieval

Python Project to extract the amino acid sequences using the nucleotide accession numbers retrieved from the NCBI. Sample results in output directory.

Features

• Retrieval of the amino acids sequences, along with various details such as locus, definition, organism, host, country, collection_date, protein_id from the NCBI.

• Put the files inside data directory.

  • If only accession numbers are there in your files, put it inside data directly.
  • If your files contain the accession numbers with their sequences similar to the one in sequence directory, put that files inside the sequence directory.

  Note: File names do not matter.

Project Setup

1. Install python version >= 3.9
2. Clone the repository.
3. Open cmd/terminal and run the following command to install dependencies pip install -e .
4. Your output will be generated inside the output directory. Please test with small numbers of seq first to make sure you’re getting what is expected.

Credits

This package was created with Cookiecutter_ and the vaibhavvikas/cookiecutter-pypackage project template.

• Cookiecutter
• vaibhavvikas/cookiecutter-pypackage