Alternatives and similar repositories for scArches-reproducibility

Users that are interested in scArches-reproducibility are comparing it to the libraries listed below

• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆67Updated 6 months ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• sqjin / scAI
  An unsupervised approach for the integrative analysis of single-cell multi-omics data
  ☆31Updated 5 years ago
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆58Updated 2 years ago
• qiaochen / VeloAE
  Low-dimensional Projection of Single Cell Velocity
  ☆28Updated 3 years ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆71Updated 2 years ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆99Updated last year
• yunguan-wang / SPROD
  SPROD: Spatial expression profiling de-noising
  ☆36Updated 2 years ago
• LungCellAtlas / HLCA
  ☆66Updated 2 years ago
• gabrielakinker / CCLE_heterogeneity
  ☆61Updated 2 years ago
• zhouzilu / cTPnet
  cTPnet Package
  ☆27Updated 3 years ago
• ggjlab / HCL
  Tools used in Human Cell Landscape(HCL)
  ☆56Updated 5 years ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆48Updated 4 years ago
• tabdelaal / SpaGE
  Enhancing spatial transcriptomics data by predicting the expression of unmeasured genes from a dissociated scRNA-seq data
  ☆40Updated last year
• bm2-lab / scLearn
  scLearn：Learning for single cell assignment
  ☆35Updated last year
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆69Updated last year
• KChen-lab / bindSC
  Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…
  ☆39Updated 2 years ago
• shuxiaoc / mario-py
  MARIO: single-cell proteomic data matching and integration using both shared and distinct features
  ☆22Updated this week
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆69Updated 2 months ago
• YangLabHKUST / Portal
  Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets
  ☆32Updated 2 years ago
• bowang-lab / DeepVelo
  ☆47Updated last year
• zcang / SpaOTsc
  ☆47Updated 5 months ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆71Updated 3 years ago
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated 3 months ago
• shuxiaoc / maxfuse
  ☆57Updated last year
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆116Updated last year
• wanglab-broad / CAST
  CAST package
  ☆42Updated last year
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆77Updated 2 years ago
• pachterlab / LP_2021
  ☆51Updated last month
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated last year