Alternatives and similar repositories for GENIE3:

Users that are interested in GENIE3 are comparing it to the libraries listed below

• aertslab / arboreto
  A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.
  ☆56Updated 10 months ago
• hmatsu1226 / SCODE
  SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation
  ☆43Updated 5 years ago
• flatironinstitute / inferelator
  Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
  ☆47Updated 7 months ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆114Updated last year
• Teichlab / bbknn
  Batch balanced KNN
  ☆153Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆113Updated 6 months ago
• rajewsky-lab / novosparc
  ☆127Updated last year
• AltschulerWu-Lab / scScope
  ☆49Updated 5 years ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆74Updated last year
• atarashansky / SAMap
  SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
  ☆72Updated 10 months ago
• zhangzlab / covid_balf
  R script for the covid balf data analysis
  ☆65Updated 4 years ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆82Updated 4 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆99Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆60Updated 10 months ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆79Updated 4 months ago
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆81Updated last month
• Durenlab / LINGER
  ☆91Updated 2 months ago
• califano-lab / ARACNe-AP
  Network Reverse Engineering through AP inference of Mutual Information
  ☆83Updated last year
• brianpenghe / Bio-Jobs
  A list of positions (mostly biology-related) open to apply
  ☆34Updated 4 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆142Updated last year
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆88Updated last year
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆100Updated last year
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆67Updated last year
• jsxlei / SCALEX
  Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
  ☆75Updated 2 months ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆87Updated 5 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆58Updated 2 years ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆66Updated last year
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆109Updated 4 months ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆142Updated 2 months ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆40Updated last year