Alternatives and similar repositories for SCALE

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

• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆93Updated last year
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆98Updated 3 weeks ago
• jsxlei / SCALEX
  Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
  ☆79Updated 3 weeks ago
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆105Updated 2 years ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆141Updated 2 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 4 years ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆43Updated 2 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago
• KrishnaswamyLab / SingleCellWorkshop
  ☆94Updated 4 years ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆111Updated 11 months ago
• rajewsky-lab / novosparc
  ☆131Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆147Updated 10 months ago
• imsb-uke / scGAN
  Realistic in silico generation and augmentation of single cell RNA-seq data using Generative Adversarial Neural Networks
  ☆84Updated last year
• SydneyBioX / scJoint
  ☆60Updated 2 years ago
• Durenlab / LINGER
  ☆114Updated 4 months ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆103Updated this week
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆150Updated last year
• TranslationalBioinformaticsUnit / singlecelldb
  An actionable database of publicly available single-cell RNA-seq data
  ☆41Updated 6 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆142Updated last year
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆95Updated 6 years ago
• JinmiaoChenLab / Batch-effect-removal-benchmarking
  A benchmark of batch-effect correction methods for single-cell RNA sequencing data
  ☆79Updated 3 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆111Updated 10 months ago
• KevinMenden / scaden
  Deep Learning based cell composition analysis with Scaden.
  ☆82Updated 11 months ago
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆176Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆92Updated last month
• pinellolab / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆63Updated 11 months ago
• Vivianstats / scImpute
  Accurate and robust imputation of scRNA-seq data
  ☆97Updated 6 years ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆87Updated 5 years ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆89Updated last year
• bm2-lab / scLearn
  scLearn：Learning for single cell assignment
  ☆35Updated 9 months ago