pymbX 0.1.3

A Python library for cleaning microbiome and metadata files using the ezclean function.

mbX

mbX is a Python library designed to simplify the cleaning and processing of microbiome and metadata files. It provides a comprehensive suite of functions to handle various data manipulations, ensuring your data is ready for downstream analysis and visualization.

Key Features

• File Validation:
  Supports common file formats including CSV, XLS, XLSX, and TXT.

• Data Cleaning & Transformation:

  • Cleans and transposes data
  • Converts data to numerical values
  • Aggregates data and calculates column-wise percentage values

• Metadata Integration:
  Merges metadata with the cleaned microbiome data seamlessly.

• Output Generation:
  Produces a final Excel file tailored to the specified taxonomy level.

Library Functions

mbX includes the following functions:

• ezclean:
  Handles the processing of qiime2 output files. This function is fully implemented in the current version and provides robust data cleaning and merging capabilities.

• ezviz:
  Aims to generate publication-ready visualizations. (Note: This function will be updated in an upcoming version.)

• ezstat:
  Designed to perform statistical analysis on 16s rRNA outputs. (Note: This function will be updated in an upcoming version.)

Installation

You can install mbX using pip:

pip install pymbX