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17 search results found

DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis

Celltypist ⭐ 202

A tool for semi-automatic cell type classification

Topometry ⭐ 69

Systematically learn and evaluate manifolds from high-dimensional data

single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph

Deep learning for single-cell transcript counts

Cellhint ⭐ 44

A tool for semi-automatic cell type harmonization and integration

Cell2cell ⭐ 44

User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins

Spicemix ⭐ 41

spatial transcriptome, single cell

Nsforest ⭐ 40

A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing

Iterative transfer learning with neural network improves clustering and cell type classification in single-cell RNA-seq analysis

Identifying tumor cells at the single-cell level using machine learning

Cshl Singlecell 2017 ⭐ 20

Single Cell Analysis course at Cold Spring Harbor Laboratory 2017

A fast, accurate, and modularized dimensionality reduction approach based on diffusion harmonics and graph layouts. Escalates to millions of samples on a personal laptop. Adds high-dimensional big data intrinsic structure to your clustering and data visualization workflow.

Devcellpy ⭐ 18

devCellPy is a Python package designed for hierarchical multilayered classification of cells based on single-cell RNA-sequencing.

Elefhant ⭐ 17

Ensemble Learning for Harmonization and Annotation of Single Cells (ELeFHAnt) provides an easy to use R package for users to annotate clusters of single cells, harmonize labels across single cell datasets to generate a unified atlas and infer relationship among celltypes between two datasets. It uses an ensemble of three machine learning classifiers 1) RF 2) SVM and 3) LR

Clustassess ⭐ 13

Tools for assessing clustering robustness

Fast Higashi ⭐ 6

single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition

single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment

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