Changelog

Changelog#

All notable changes to this project will be documented in this file.The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

[Unreleased]#

Added#

March 2024#

  • Hyperparameter tuning

  • Changed default latent distribution from "normal" to logit normal ("ln")

January 2024#

  • sccoral in sc-verse cookiecutter template

  • Added sccoral.data for project-specific data

  • Added callbacks for pretraining procecure

Tests

  • Added tests for model setup

  • Added tests based on implemented tests for callbacks

  • Added tests for misc. model features

Model

  • Added custom TrainingPlan with pre-training procedure for covariates

Documentation

  • Add readthedocs website

December 2023#

  • Model/Module/nn - Covariate informed VAE with linear decoder, model based on LSCVI

  • Added l1-regularization term to linear decoder

[TODO]#

Project data#

  • Implement data projection

Jupyter Notebooks#

  • Jupyter Notebook - Demonstration on simulated data

  • Jupyter Notebook - Demonstration on IFN stimulation - Kang et al, 2018 data

tl#

  • Find markers

Plotting (.pl)#

  • Implement plotting module

Refactoring#

Contents