seurat
There are 120 repositories under seurat topic.
zhanghao-njmu/SCP
An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
samuel-marsh/scCustomize
R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
ZJUFanLab/scCATCH
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
ChristophGeske/ARCoreInsideOutTrackingGearVr
Inside Out Positional Tracking (6DoF) for GearVR/Cardboard/Daydream using ARCore v1.6.0
enblacar/SCpubr
Generate high quality, publication ready visualizations for single cell transcriptomics data.
stemangiola/tidyseurat
Seurat meets tidyverse. The best of both worlds.
CelVoxes/ceLLama
Cell type annotation with local Large Language Models (LLMs) - Ensuring privacy and speed with extensive customized reports
interactivereport/cellxgene_VIP
Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey and dual-gene plot in high-resolution SVG/PNG format. It also performs differential gene expression analysis and provides a Command Line Interface (CLI) for advanced users to perform analysis using python and R.
basilkhuder/Seurat-to-RNA-Velocity
A guide to using a Seurat object in conjunction with RNA Velocity
Dragonmasterx87/Interactive-3D-Plotting-in-Seurat-3.0.0
This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
lilab-bcb/cirrocumulus
Bring your single-cell data to life
vertesy/Seurat.utils
Various utility functions for Seurat single-cell analysis
milescsmith/ReductionWrappers
R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)
nasqar/seuratv3wizard
A web-based interactive (wizard style) application to perform a guided single-cell RNA-seq data analysis and clustering based on Seurat v3
nasqar/NASQAR
NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization
PMBio/MuDataSeurat
.h5mu files interface for Seurat
NMikolajewicz/scMiko
R package developed for single-cell RNA-seq analysis. It was designed using the Seurat framework, and offers existing and novel single-cell analytic work flows.
stemangiola/tidygate
Label elements within user drawn gates
harbourlab/PieParty
represent each cell in UMAP plots as a pie chart
Qile0317/APackOfTheClones
Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles.
nasqar/SeuratWizard
This is a web-based interactive (wizard style) application to perform a guided single-cell RNA-seq data analysis and clustering based on Seurat.
cemalley/scRNASeq-bulkRNASeq
single cell and bulk RNASeq analysis scripts
kpatel427/multiome_analysis
Scripts for sincle cell multiome analysis
jr-leary7/SCISSORS
SCISSORS builds upon the Louvain graph-based clustering in Seurat by optimizing parameter selection when reclustering cell groups, with an eye towards identifying rare cell types.
vertesy/pseudoBulk
Cluster-specific pseudo-bulk analysis of 10X single-cell RNA-seq data by connecting Seurat to the VBC RNA-seq pipeline.
milescsmith/scRNAimputeR
A effort to collect all of the scRNA imputation methods and allow them to interface with scRNA-seq libraries (i. e. Seurat, SingleCellAssay, etc...)
Dragonmasterx87/Merging-multiple-Seurat-Objects
Hello there! Some code on how to merge >2 Seurat objects and maintain object identity :)
nbroguiere/burgertools
Bundle of Useful scRNA-seq Gating Tools Extending seuRat
tstephie/UMICH-CDS-SR-scRNA-seq-Workshop-2022
scRNA-seq analysis 2022 workshop hosted by UMICH's CDS-SR
vertesy/Seurat.multicore
Multicore and utility functions for Seurat 2 & 3, using doMC / foreach packages.
basilkhuder/extendSC
extendSC adds functionalities to Seurat-based scRNA-Seq workflows.
bixBeta/TReX
RNA-seq, smRNA-seq, scRNA-seq & ATAC-seq workflows for @Cornell-Trex
gambalab/scRNAseq_chapter
Review on Single Cell RNA-sequencing
milescsmith/ReducedHeat
Display gene expression along a given reduced dimension on a heatmap