rMiW: A R package for providing a microscopy-based image analysis workflow

Description

This package provides a workflow for pre-processing, analysis and deep learning for microscopy-based images.

Topics in this project

• R language usage / Bioconductor

• Keras/Tensorflow usage in R

• Microscopy-based images, especially electron microscopy images

• Providing workflows for microscopy-based image analysis

  • Image pre-processing (read, display, and resize etc)
  • Deep learning (DL) models for image analysis
  • Semantic segmentation for 2D/3D images using DL

• Integrated usage with BioImageDBs

  • Future plan
    • Object recognition for microscopy images
    • Post-DL image processing
    • Multivariate analysis of cell image features

Getting started

• The installation of rMiW and the related packages

• Checking the GPU condition on CnetOS7

Tutrials

• rMiW: 01. Providing a basic workflow for microscopy-based images

• rMiW: 02. rMiW & BioImageDbs for a workflow for microscopy-based image analysis and deep learning

• rMiW: 03. Providing a image generation using GAN

License

Copyright (c) 2021 Satoshi Kume released under the Artistic License 2.0.

Cite

If any scientific publications derive from this project, you must cite:

Scientific paper is under preparation.

Authors

• Satoshi Kume