https://github.com/robaina/genbankpy

Tools to download, parse and filter GenBank files
https://github.com/robaina/genbankpy

bioinformatics computational-biology genbank genomics ncbi python sequencing

Last synced: 10 days ago
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Tools to download, parse and filter GenBank files

• Host: GitHub
• URL: https://github.com/robaina/genbankpy
• Owner: Robaina
• License: apache-2.0
• Created: 2021-12-02T23:43:30.000Z (almost 3 years ago)
• Default Branch: main
• Last Pushed: 2022-12-18T14:18:16.000Z (almost 2 years ago)
• Last Synced: 2024-10-17T19:39:29.783Z (20 days ago)
• Topics: bioinformatics, computational-biology, genbank, genomics, ncbi, python, sequencing
• Language: Python
• Homepage:
• Size: 25 MB
• Stars: 5
• Watchers: 2
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE
  • Code of conduct: CODE_OF_CONDUCT.md
  • Citation: CITATION.cff

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README

        
![logo](assets/logo.png)

## A Python tool to download and parse GenBank files

![GitHub release (latest by date)](https://img.shields.io/github/v/release/Robaina/Genbankpy)

[![GitHub license](https://img.shields.io/github/license/Robaina/GenBankpy)](https://github.com/Robaina/GenBankpy/blob/main/LICENSE)

![Contributor Covenant](https://img.shields.io/badge/Contributor%20Covenant-v2.0%20adopted-ff69b4)

[![DOI](https://zenodo.org/badge/434408493.svg)](https://zenodo.org/badge/latestdoi/434408493)

## Installation

1. Fork git repo into local machine (click on fork) and clone, or simply clone main branch with

```

git clone https://github.com/Robaina/GenBankpy.git

```

2. CD to project directory and set conda environment if not already set:

```

conda env create -n genbankpy -f environment.yml

```

3. Activate environment:

```

conda activate genbankpy

```

## Usage

You can find a jupyter notebook with usage examples [here](examples/examples.ipynb).

## Citation

If you use this software, please cite it as below:

Robaina-Estévez, S. (2022). Genbankpy: a Python tool to ddownload and parse GenBank files (Version 0.0.1)[Computer software]. https://doi.org/10.5281/zenodo.7046036.