Alternatives and similar repositories for SCENICprotocol

Users that are interested in SCENICprotocol are comparing it to the libraries listed below

• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆153Updated 3 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆237Updated 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.
  ☆228Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆140Updated 4 years ago
• sunduanchen / Scissor
  Scissor package
  ☆249Updated last year
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆206Updated last week
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆245Updated 2 weeks ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆215Updated last year
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆143Updated 2 years ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆179Updated 5 months ago
• mdozmorov / scATAC-seq_notes
  scATAC-seq data analysis tools and papers
  ☆128Updated 7 months ago
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆217Updated last month
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated 2 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆182Updated last year
• 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
  ☆122Updated 2 years ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆123Updated last year
• YMa-lab / CARD
  ☆129Updated last year
• navinlabcode / copykat
  ☆268Updated 3 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆178Updated 10 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆230Updated last year
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆120Updated 3 months ago
• neurorestore / Libra
  ☆181Updated 8 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆187Updated 3 weeks ago
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆151Updated 7 months ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆172Updated 4 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆162Updated 5 years ago
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆191Updated 3 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆311Updated 3 years ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆198Updated 3 weeks ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 5 years ago