Alternatives and similar repositories for scFEA

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

• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆117Updated 2 weeks ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆150Updated 3 years ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆136Updated 8 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆115Updated 2 weeks ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆180Updated 2 years ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆168Updated 3 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆122Updated 6 months ago
• navinlabcode / CellTrek
  ☆126Updated 3 years ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆168Updated 2 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆191Updated 3 weeks ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆99Updated 2 years ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆169Updated 7 months ago
• YMa-lab / CARD
  ☆127Updated last year
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆119Updated last year
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆148Updated 3 months ago
• chuiqin / irGSEA
  The integration of single cell rank-based gene set enrichment analysis
  ☆138Updated 4 months ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆173Updated last year
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆178Updated last week
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆144Updated 2 years ago
• sunduanchen / Scissor
  Scissor package
  ☆240Updated last year
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆115Updated last year
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆128Updated last year
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆161Updated last month
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆147Updated 4 months ago
• Durenlab / LINGER
  ☆118Updated 5 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆158Updated 4 years ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆84Updated 2 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆234Updated 2 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆70Updated 4 years ago