tabdelaal / scRNAseq_Benchmark

Related projects ⓘ

Alternatives and complementary repositories for scRNAseq_Benchmark

• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆177Updated 3 years ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆170Updated 2 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆143Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆132Updated 2 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆184Updated 7 months ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆188Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆154Updated 9 months ago
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆131Updated last year
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆186Updated 2 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆159Updated 4 months ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆119Updated 6 months ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆135Updated 7 months ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆279Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆123Updated this week
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆218Updated last year
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆306Updated last year
• sunduanchen / Scissor
  Scissor package
  ☆189Updated 6 months ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆168Updated this week
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆259Updated 2 years ago
• mdozmorov / scATAC-seq_notes
  scATAC-seq data analysis tools and papers
  ☆98Updated last year
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆134Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆184Updated 5 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆147Updated 4 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆138Updated 3 years ago
• 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
  ☆117Updated last year
• navinlabcode / copykat
  ☆210Updated 4 months ago
• neurorestore / Libra
  ☆153Updated 2 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆133Updated 8 months ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆88Updated last year
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆105Updated 3 weeks ago