SindiLab repositories

11 repositories

Deep-Learning-in-Spatial-Transcriptomics-Analysis
Public
This repository will host a (continously updated) list of various deep learning methods used in different stages of spatial transcriptomics analysis.
MIT License
•6•45•0•0•Updated Jul 20, 2026Jul 20, 2026
workingTutorialSIAM2026
Public
Working Minitutorial for SIAM 20206 (just for development)
Jupyter Notebook
•
MIT License
•0•0•0•0•Updated Jun 26, 2026Jun 26, 2026
HomeostaticExpansion
Public
PhD project at UC Merced
0•0•0•0•Updated Jun 25, 2023Jun 25, 2023
scANNA
Public
The main repository hosting the implementation of scANNA (single-cell ANalysis using Neural Attention)
Python
•
MIT License
•1•4•0•0•Updated Jun 15, 2023Jun 15, 2023
Tutorials
Public
This Repository will host basic Tutorial for getting started with SingleCell Analysis in Python
HTML
•1•5•1•0•Updated May 9, 2023May 9, 2023
N-ACT-TrainingScripts
Public
A repository to host the main scripts for training (and pre-training) N-ACT
Python
•
MIT License
•1•2•0•0•Updated Jan 27, 2023Jan 27, 2023
N-ACT
Public
The public repository for N-ACT: An Interpretable Deep Learning Model for Automatic Cell Type and Salient Gene Identification
machine-learning deep-learning feature-selection
machine-learning deep-learning feature-selection transfer-learning single-cell-rna-seq interpretable-machine-learning unsupervised-annotation
Python
•
MIT License
•1•2•0•0•Updated Jan 27, 2023Jan 27, 2023
ACTINN-PyTorch
Public
An easy-to-use PyTorch implementation of Automatic Cell-Types Identification of single-cell RNA sequencing using Neural Networks (ACTINN)
pytorch single-cell scanpy
pytorch single-cell scanpy activa automatic-cell-identification actinn
Python
•
MIT License
•4•7•0•0•Updated Jan 23, 2023Jan 23, 2023
ACTIVA
Public
The main repository for ACTIVA: realistic single-cell RNA-seq generation with automatic cell-type identification using introspective variational autoencoders
deep-learning generative-model variational-autoencoder
deep-learning generative-model variational-autoencoder synthetic-dataset-generation activa scrnaseq-datasets introspective-vaes
Python
•
MIT License
•5•10•2•0•Updated Jan 23, 2023Jan 23, 2023
Going_through_phages
Public
This repository contains a few of the perl scripts used to analyze data in going through phages manuscript
Jupyter Notebook
•3•0•0•0•Updated May 2, 2022May 2, 2022
SCData-PreProcessing
Public
A package for pre-processing single-cell data in Python for machine learning purposes
Python
•
MIT License
•0•1•2•0•Updated Mar 23, 2022Mar 23, 2022

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Sindi Lab (University of California, Merced)

All

11 repositories

Deep-Learning-in-Spatial-Transcriptomics-Analysis

workingTutorialSIAM2026

HomeostaticExpansion

scANNA

Tutorials

N-ACT-TrainingScripts

N-ACT

ACTINN-PyTorch

ACTIVA

Going_through_phages

SCData-PreProcessing

Repositories list

11 repositories