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
  ☆139Updated 3 years ago
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆201Updated 3 weeks ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆136Updated 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
  ☆121Updated last year
• mdozmorov / scATAC-seq_notes
  scATAC-seq data analysis tools and papers
  ☆103Updated last year
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆188Updated 5 months ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆193Updated 10 months ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆222Updated last year
• sunduanchen / Scissor
  Scissor package
  ☆205Updated 9 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆110Updated 5 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆264Updated 2 years ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆138Updated last month
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆123Updated 2 months ago
• neurorestore / Libra
  ☆162Updated 5 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆139Updated 4 years ago
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆127Updated 6 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆157Updated last year
• 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.
  ☆242Updated last week
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆118Updated 2 weeks ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆159Updated 2 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆96Updated last week
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆175Updated 3 months ago
• swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
  Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
  ☆89Updated 3 years ago
• navinlabcode / copykat
  ☆221Updated 7 months ago
• Swarbricklab-code / BrCa_cell_atlas
  Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".
  ☆111Updated 4 months ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆180Updated 4 years ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆154Updated 7 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆155Updated last year
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆119Updated 3 months ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 4 years ago