91 Open source projects that are alternatives of or similar to Nebulosa

Convert between AnnData and SingleCellExperiment

Mouse cell atlas

Single cell analysis in the browser

Signac

tGPLVM: A Nonparametric, Generative Model for Manifold Learning with scRNA-seq experimental data

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

No description or website provided.

Pipeline for initial analysis of droplet-based single-cell RNA-seq data

Stacked Denoising AutoEncoder based on TensorFlow

An R implementation of the SINCERA pipeline for single cell RNA-seq profiling analysis

Discrete Distributional Differential Expression

Metacell - Single-cell mRNA Analysis

scLearn：Learning for single cell assignment

Single-cell exploratory data analysis for RNA-Seq

scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two conditions

Single-cell Orientation Tracing

Differential expression analysis for single-cell RNA-seq data.

Code for the empty droplet and cell detection project from the HCA Hackathon.

Processing of single cell RNAseq data for the recovery of TCRs in python

Spatial Single Cell Analysis in Python

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

Scripts to run and benchmark scRNA-seq cell cluster labeling methods

A R framework for pipeline benchmarking, with application to single-cell RNAseq

Reliable, scalable and demultiplexing for single-cell RNA sequencing. Improves genotypes with Expectation-Maximization

Single Cell Analysis Pipelines

Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and CyTOF data

Community-provided extensions to Seurat

A comprehensive dimensional reduction framework to recover the latent topology from high-dimensional data.

BEER: Batch EffEct Remover for single-cell data

SHARP: Single-cell RNA-seq Hyper-fast and Accurate processing via ensemble Random Projection

Comparison of dimensionality reduction methods