Alternatives and similar repositories for FiRE

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

• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• lanagarmire / NMFEM
  ☆16Updated 8 years ago
• markrobinsonuzh / scRNAseq_clustering_comparison
  A study to compare methods for clustering of scRNA-seq data
  ☆43Updated last year
• CostaLab / scMEGA
  scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference
  ☆43Updated last year
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆77Updated 2 years ago
• zhouzilu / cTPnet
  cTPnet Package
  ☆27Updated 3 years ago
• lkmklsmn / insct
  scRNAseq integration with triplet neural networks
  ☆41Updated 3 years ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 7 years ago
• shmohammadi86 / SCINET
  ☆19Updated 4 years ago
• BIRSBiointegration / Hackathon
  Multi-omics studies are available here
  ☆52Updated 3 years ago
• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆35Updated 4 years ago
• ambrosejcarr / seqc
  Single-Cell Sequencing Quality Control and Processing Software
  ☆30Updated 6 years ago
• jingshuw / SAVERX
  R package for transfer learning of single-cell RNA-seq denoising
  ☆30Updated 3 years ago
• wycwycpku / RSCORE
  ☆27Updated 4 years ago
• caleblareau / asap_reproducibility
  Reproducing all analyses and figures for the ASAP-seq paper
  ☆29Updated 4 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• theMILOlab / SPATA
  SPATA Package for spatial gene expression analysis
  ☆21Updated 3 years ago
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 5 years ago
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆19Updated last year
• sdomanskyi / DigitalCellSorter
  Digital Cell Sorter (DCS): single cell RNA-seq analysis toolkit. Documentation:
  ☆24Updated 4 years ago
• seasamgo / rescue
  Bootstrap imputation for scRNAseq data
  ☆12Updated 5 years ago
• thomasmaxwellnorman / Perturbseq_GI
  Code for reproducing "Exploring genetic interaction manifolds constructed from rich single-cell phenotypes"
  ☆65Updated 5 years ago
• yanailab / knn-smoothing
  K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data
  ☆59Updated 3 years ago
• jingxinfu / TIDEpy
  TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade…
  ☆34Updated 3 years ago
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆37Updated 3 years ago
• klarman-cell-observatory / scSVA
  Single-cell Scalable Visualization and Analytics
  ☆26Updated 6 years ago
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆21Updated 4 years ago
• Winnie09 / imputationBenchmark
  benchmark for single-cell RNA-seq imputation methods
  ☆29Updated last year
• sqjin / scAI
  An unsupervised approach for the integrative analysis of single-cell multi-omics data
  ☆31Updated 5 years ago
• tanlabcode / CytoTalk
  A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…
  ☆43Updated 2 months ago