Alternatives and similar repositories for LINGER

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

• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆102Updated 6 months ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆63Updated last year
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆87Updated 8 months ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆93Updated last year
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆110Updated 5 months ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆130Updated last year
• lanagarmire / Asgard
  ☆43Updated last year
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆111Updated 11 months ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆74Updated last month
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆139Updated 2 years ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 10 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆104Updated 7 months ago
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆65Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆132Updated 6 months ago
• navinlabcode / CellTrek
  ☆125Updated 3 years ago
• multitalk / awesome-cell-cell-communication
  Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
  ☆53Updated 3 months ago
• theislab / regvelo
  inferring regulatory cellular dynamics
  ☆56Updated this week
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆104Updated last year
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆68Updated 4 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆76Updated 7 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 4 months ago
• snehamitra / SCARlink
  ☆58Updated 2 months ago
• madilabcode / scNET
  ☆53Updated this week
• xiaoyeye / TFvelo
  ☆45Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆122Updated last week
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆116Updated 4 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆113Updated 7 months ago