Alternatives and similar repositories for scenicplus:

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

• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆199Updated 7 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆144Updated 3 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆156Updated 2 years ago
• sunduanchen / Scissor
  Scissor package
  ☆216Updated 11 months ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated last year
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆324Updated 9 months ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆198Updated last year
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆158Updated last month
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆138Updated 3 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆145Updated 4 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆419Updated last year
• kaizhang / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆258Updated last week
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆273Updated 2 years ago
• mdozmorov / scATAC-seq_notes
  scATAC-seq data analysis tools and papers
  ☆107Updated last year
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 3 years ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆201Updated 8 months ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆179Updated 5 months ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆271Updated 3 weeks ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆148Updated 4 years ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆119Updated last year
• navinlabcode / copykat
  ☆231Updated 10 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆126Updated 2 months ago
• IanevskiAleksandr / sc-type
  ☆261Updated 5 months ago
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆133Updated 8 months ago
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆152Updated last week
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆173Updated 2 weeks ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆182Updated 4 years ago
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆204Updated 2 months ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆359Updated last week