Alternatives and similar repositories for CellWhisperer

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

• YosefLab / popV
  ☆78Updated 2 weeks ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 2 months ago
• buenrostrolab / scPrinter
  ☆42Updated last week
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆38Updated this week
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆69Updated last year
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆68Updated this week
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆78Updated 3 months ago
• cantinilab / Circe
  Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).
  ☆21Updated 2 months ago
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆52Updated 5 months ago
• theislab / DRVI
  Unsupervised Deep Disentangled Representation of Single-Cell Omics
  ☆44Updated this week
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆110Updated last month
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆71Updated 4 months ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆97Updated 3 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆107Updated 3 months ago
• theislab / scTab
  ☆59Updated 9 months ago
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆103Updated this week
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆78Updated 6 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆63Updated last year
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆62Updated this week
• SchubertLab / mvTCR
  ☆53Updated 7 months ago
• cantinilab / scPRINT
  single cell foundation model for Gene network inference and more
  ☆88Updated this week
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆115Updated this week
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆75Updated 3 months ago
• shuxiaoc / maxfuse
  ☆53Updated last year
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆43Updated 3 years ago
• noamteyssier / adpbulk
  pseudobulking on an AnnData object
  ☆32Updated 3 months ago
• EngreitzLab / scE2G
  Pipeline to run scE2G
  ☆26Updated this week
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆129Updated 4 months ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆59Updated last year
• Durenlab / LINGER
  ☆107Updated 3 weeks ago