SCUBA
Cell differentiation model
A MATLAB package for modeling cell differentiation and lineage relationships from single-cell gene expression data.
11 stars
4 watching
9 forks
Language: MATLAB
last commit: over 2 years ago
Linked from 1 awesome list
Related projects:
Repository | Description | Stars |
---|---|---|
ggiecold/eclair | An algorithmic framework for inferring cell lineages from gene expression data through multiple rounds of downsampling and clustering, followed by consensus clustering and graph construction. | 1 |
teichlab/gpfates | Software to model transcriptional cell fates as mixtures of Gaussian Processes | 19 |
kchen-lab/medalt | Software for inferring evolutionary lineage of tumor cells from single cell copy number profiles | 17 |
sysbiochalmers/yeast-gem | A genome-scale metabolic model of Saccharomyces cerevisiae for simulating cellular metabolism and predicting growth | 96 |
hmatsu1226/scoup | A probabilistic model to analyze single-cell expression data during differentiation | 9 |
mitgcm/mitgcm | A climate model implementation using automatic differentiation and data assimilation to simulate global ocean circulation | 338 |
yulab-smu/ggsc | A package for visualizing single cell and spatial transcriptomics data using R | 43 |
antoniodefalco/scevan | Automated tool for classifying cells in scRNA data and inferring copy number profiles of malignant cells. | 93 |
sysbiochalmers/gecko | A toolbox for incorporating enzyme constraints into genome-scale models of biological systems | 67 |
jamesjcai/scgeatoolbox | A toolset for analyzing single-cell gene expression data from RNA sequencing experiments. | 24 |
sentinal4d/cellshape | Analyzes 3D cell shape features using deep learning for cancer research | 21 |
pachterlab/cwgflhgcchap_2021 | Analyzing multiplexed single-cell RNA-seq data from a marine organism, providing tools for preprocessing, clustering, and analysis of gene expression across different cell types. | 2 |
celldynamics/quimp | Software for analyzing cellular shape changes and fluorescent reporter distributions in real-time | 7 |
zjufanlab/scdeepsort | A tool for accurately annotating cell types in single-cell RNA sequencing data using deep learning | 99 |
codait/deep-histopath | Develops an automatic prediction model for breast cancer proliferation scores from whole-slide histopathology images using deep learning techniques. | 206 |