25 Open source projects that are alternatives of or similar to single_cell_portal

Reference mapping for single-cell genomics

A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batches

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

This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data

GREIN : GEO RNA-seq Experiments Interactive Navigator

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

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.

Cloud-based single-cell copy-number variation analysis tool

Scalable RNA-seq analysis

scGEAToolbox: Matlab toolbox for single-cell gene expression analyses

Snakemake based pipeline for RNA-Seq analysis

Fast in-silico normalization algorithm for NGS data

<<------ Use SnapATAC!!

CellRank for directed single-cell fate mapping

UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets

Make rapid visualizations of RNA-seq data in R

Interactive Differential Expression AnaLysis - DE made accessible and reproducible

Data-driven Network-based Bayesian Inference of Drivers

The Read Origin Protocol (ROP) is a computational protocol that aims to discover the source of all reads, including those originating from repeat sequences, recombinant B and T cell receptors, and microbial communities.

Small non-coding RNA annotation Pipeline Optimized for rRNA- and tRNA-Derived Small RNAs

interactive Multi Objective K-mer Analysis

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

Community-provided extensions to Seurat

Discrete Distributional Differential Expression