🔬 Biology and Chemistry

Biopython

• Description: A set of tools for biological computation.

• Use Case: Used in biological computation including sequence analysis, 3D structure, and bioinformatics.

• Documentation: Biopython Documentation

• GitHub Repository: Biopython GitHub

ChemPy

• Description: A Python package useful for solving problems in chemistry.

• Use Case: Chemical kinetics, equilibrium, and thermodynamics calculations, and symbolically solving rate equations.

• Documentation: ChemPy Documentation

• GitHub Repository: ChemPy GitHub

Matplotlib

• Description: A plotting library for creating static, animated, and interactive visualizations.

• Use Case: Generating plots and charts for visualizing biological and chemical data.

• Documentation: Matplotlib Documentation

• GitHub Repository: Matplotlib GitHub

MDTraj

• Description: A python library for analysis of molecular dynamics trajectories.

• Use Case: Analyzing, visualizing, and computing on molecular dynamics trajectories in computational biology.

• Documentation: MDTraj Documentation

• GitHub Repository: MDTraj GitHub

NetworkX

• Description: A package for the creation, manipulation, and study of complex networks.

• Use Case: Analyzing biological networks and pathways, and chemical compound structures.

• Documentation: NetworkX Documentation

• GitHub Repository: NetworkX GitHub

NumPy

• Description: Fundamental package for scientific computing.

• Use Case: Handling numerical data and performing calculations for biological and chemical analysis.

• Documentation: NumPy Documentation

• GitHub Repository: NumPy GitHub

Open Babel

• Description: A chemical toolbox designed to speak the many languages of chemical data.

• Use Case: Interconverting file formats, molecular modeling, geometry optimization, and other chemical informatics tasks.

• Documentation: Open Babel Documentation

• GitHub Repository: Open Babel GitHub

Pandas

• Description: Data analysis and manipulation library.

• Use Case: Organizing and analyzing biological and chemical data, such as experimental results or genomic data sets.

• Documentation: Pandas Documentation

• GitHub Repository: Pandas GitHub

PyMOL

• Description: A Python-enhanced molecular graphics tool.

• Use Case: Visualization of molecular structures, creation of publication-quality images, and animations of chemical processes.

• Documentation: PyMOL Documentation

• GitHub Repository: PyMOL GitHub

RDKit

• Description: An open-source cheminformatics software.

• Use Case: Cheminformatics, molecular modeling, and chemical structure analysis.

• Documentation: RDKit Documentation

• GitHub Repository: RDKit GitHub

SciPy

• Description: An open-source Python library used for scientific and technical computing.

• Use Case: Technical computations and simulations in biological and chemical research.

• Documentation: SciPy Documentation

• GitHub Repository: SciPy GitHub

Seaborn

• Description: A statistical data visualization library.

• Use Case: Creating attractive and informative statistical graphics in biological and chemical research.

• Documentation: Seaborn Documentation

• GitHub Repository: Seaborn GitHub

SymPy

• Description: A Python library for symbolic mathematics.

• Use Case: Solving symbolic equations and expressions in chemistry and molecular biology.

• Documentation: SymPy Documentation

• GitHub Repository: SymPy GitHub

TensorFlow

• Description: An open-source software library for machine learning applications.

• Use Case: Machine learning applications in bioinformatics, such as gene sequence analysis and predictive modeling in chemistry.

• Documentation: TensorFlow Documentation

• GitHub Repository: TensorFlow GitHub

Vega

• Description: A visualization grammar for creating, saving, and sharing interactive visualization designs.

• Use Case: Advanced data visualization in biology and chemistry, especially for complex datasets.

• Documentation: Vega Documentation

• GitHub Repository: Vega GitHub