KrishnaswamyLab/logicml KrishnaswamyLab/logicml

  • Stars
    star
    5
  • Rank 2,861,937 (Top 57 %)
  • Language
    C
  • License
    GNU General Publi...
  • Created over 4 years ago
  • Updated almost 3 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
KrishnaswamyLab/logicml
github

KrishnaswamyLab

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

More Repositories

1

PHATE

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
Python
436
star
2

MAGIC

MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.
Jupyter Notebook
338
star
3

SAUCIE

Python
98
star
4

TrajectoryNet

TrajectoryNet: A Dynamic Optimal Transport Network for Modeling Cellular Dynamics
Jupyter Notebook
98
star
5

SingleCellWorkshop

Jupyter Notebook
87
star
6

scprep

A collection of scripts and tools for loading, processing, and handling single cell data.
Python
73
star
7

phateR

PHATE dimensionality reduction method implemented in R
HTML
73
star
8

ReLSO-Guided-Generative-Protein-Design-using-Regularized-Transformers

a Transformer-based neural network for generating highly optimized protein sequences called Regularized Latent Space Optimization (RELSO)
Jupyter Notebook
71
star
9

Multiscale_PHATE

Creating multi-resolution embeddings and clusters from high dimensional data
Jupyter Notebook
48
star
10

travelgan

Python
46
star
11

graphtools

Tools for building and manipulating graphs in Python
Python
41
star
12

DiffusionEMD

Code corresponding to the paper Diffusion Earth Mover's Distance and Distribution Embeddings
Jupyter Notebook
27
star
13

AAnet

Archetypal Analysis network (AAnet)
Jupyter Notebook
23
star
14

TPHATE

Python
22
star
15

MAGAN

Python
17
star
16

MIOFlow

Jupyter Notebook
17
star
17

phemd

Identifying cell subpopulational differences among single-cell biospecimens
R
12
star
18

PECAN

PECAN: Persistent Condensation
Jupyter Notebook
9
star
19

SUGAR

Synthesis using Geometrically Aligned Random-walks
MATLAB
7
star
20

CATCH

Learning cellular hierarchy from scRNAseq data
Jupyter Notebook
7
star
21

GSAE

Code from 'Uncovering the Folding Landscape of RNA Secondary Structure with Deep Graph Embeddings"
Jupyter Notebook
7
star
22

HeatGeo

Embedding with the Heat-geodesic dissimilarity
Jupyter Notebook
6
star
23

visualization_selection

Selecting the right tool for the job: understanding drawbacks and biases in visualization methods
Jupyter Notebook
6
star
24

LearnableScattering

Learnable Geometric Scattering Network
Python
6
star
25

CUTS

[MICCAI 2024] CUTS: A Deep Learning and Topological Framework for Multigranular Unsupervised Medical Image Segmentation
Python
5
star
26

LAD

Lipschitz Anomaly Discriminator
Python
5
star
27

CurveNet

Diffusion curvature and Hessian prediction using point samples from quadratic hypersurfaces
MATLAB
5
star
28

Cell-Dynamics-Pipeline

Python
5
star
29

scgraph

Graph-based methods for the analysis of single-cell data
Python
5
star
30

ImageFlowNet

Python
5
star
31

GeoSinkhorn

Code for the paper Geodesic Sinkhorn for Fast and Accurate Optimal Transport on Manifolds.
Python
4
star
32

GSPA-manuscript-analyses

Learning meaningful representations of genes
Jupyter Notebook
4
star
33

Gene-Signal-Pattern-Analysis

Learning meaningful representations of genes
Jupyter Notebook
3
star
34

graph_fit

New ways of fitting a graph to vector data.
Jupyter Notebook
3
star
35

pointcloud_scattering

Python
3
star
36

scnn

Deep learning methods for the analysis of single-cell data
Python
2
star
37

Trellis

2
star
38

NN-LossLandscape-PHATE

Exploring the Geometry and Topology of Neural Network Loss Landscapes
Python
2
star
39

CSHL_ComputationalGenomics2022

2
star
40

Directed-Hierarchical-Gene-Networks

Python
2
star
41

scMMGAN

Python
2
star
42

RiTINI

Regulatory Temporal Interaction Network Inference
2
star
43

spARC

Denoising spatial transcriptomics data
Jupyter Notebook
2
star
44

GEFMAP

Jupyter Notebook
2
star
45

CSHL_ComputationalGenomics2023

2
star
46

krishnaswamy-lab-site

Svelte
1
star
47

phate-docker

Interactive command line docker script for running PHATE
Python
1
star
48

NSCLC_pembro_sbrt

Jupyter Notebook
1
star
49

GRASSY-Net

Python
1
star
50

NeuronTransform

Python
1
star
51

FMGAN

Python
1
star
52

Condensation

Diffusion Condensation is a topologically-inspired machine learning algorithm that is used to identify populations of cells across granularities.
Jupyter Notebook
1
star