Alternatives and similar repositories for scArches-reproducibility:

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

• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆49Updated last year
• multitalk / awesome-cell-cell-communication
  Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
  ☆46Updated 2 weeks ago
• shuxiaoc / mario-py
  MARIO: single-cell proteomic data matching and integration using both shared and distinct features
  ☆23Updated last year
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆74Updated 4 months ago
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆39Updated 3 years ago
• KChen-lab / bindSC
  Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…
  ☆35Updated last year
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆26Updated this week
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆60Updated 10 months ago
• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆34Updated 2 months ago
• wanglab-broad / CAST
  CAST package
  ☆34Updated 6 months ago
• ma-compbio / GAGE-seq
  Data processing and analysis workflow for GAGE-seq, a coassay of single-cell HiC and single-cell RNA-seq
  ☆13Updated last year
• ZJUFanLab / scRank
  A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gen…
  ☆46Updated 8 months ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆40Updated 3 years ago
• yunguan-wang / SPROD
  SPROD: Spatial expression profiling de-noising
  ☆36Updated last year
• Teichlab / HCA_Heart_ver2
  ☆34Updated last year
• YangLabHKUST / Portal
  Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets
  ☆30Updated last year
• wanglabtongji / CCI
  Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information
  ☆20Updated 2 years ago
• cailab-tamu / scTenifoldKnk
  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.
  ☆45Updated 4 months ago
• data2intelligence / SpaCET
  Spatial Cellular Estimator for Tumors
  ☆51Updated last week
• tabdelaal / SpaGE
  Enhancing spatial transcriptomics data by predicting the expression of unmeasured genes from a dissociated scRNA-seq data
  ☆34Updated 10 months ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆69Updated last year
• Svvord / iMAP
  A novel unsupervised batch removal framework, called iMAP, based on neural networks.
  ☆35Updated 3 years ago
• Winnie09 / Lamian
  ☆53Updated 9 months ago
• wanglabtongji / STRIDE
  STRIDE (Spatial TRanscRIptomics DEconvolution by topic modelling) is a cell-type deconvolution tool for spatial transcriptomics by using …
  ☆27Updated last year
• YingMa0107 / IRIS
  Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics
  ☆35Updated 3 months ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 2 years ago
• qiaochen / VeloAE
  Low-dimensional Projection of Single Cell Velocity
  ☆27Updated 2 years ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆58Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated last year
• Wei-BioMath / NeuronChat
  ☆35Updated last year