Alternatives and similar repositories for Cassiopeia

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

• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆34Updated 4 months ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆89Updated 11 months ago
• jmbreda / Sanity
  Filtering of Poison noise on a single-cell RNA-seq UMI count matrix
  ☆78Updated 5 months ago
• rajewsky-lab / spacemake
  ☆45Updated 2 weeks ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆31Updated 2 years ago
• nimwegenLab / cellstates
  Finding gene expression states in scRNA-seq data
  ☆51Updated last year
• flatironinstitute / inferelator
  Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
  ☆52Updated last year
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆111Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆122Updated 2 weeks ago
• czbiohub-sf / tabula-sapiens
  Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens
  ☆42Updated 2 months ago
• HYsxe / PRINT
  ☆36Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆65Updated 3 months ago
• calico / solo
  software to detect doublets
  ☆95Updated 9 months ago
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆55Updated last year
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆28Updated last week
• timoast / sinto
  Tools for single-cell data processing
  ☆127Updated last year
• noamteyssier / adpbulk
  pseudobulking on an AnnData object
  ☆34Updated 7 months ago
• aertslab / CREsted
  CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…
  ☆49Updated last week
• AllonKleinLab / PBA
  Population balance analysis
  ☆44Updated 6 years ago
• parashardhapola / scarf
  Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…
  ☆105Updated 6 months ago
• lhqing / ALLCools
  Toolkit for single-cell DNA methylation analysis.
  ☆42Updated last week
• lilab-bcb / harmony-pytorch
  ☆56Updated 5 months ago
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆72Updated 5 months ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 3 years ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆31Updated 2 weeks ago
• LungCellAtlas / mapping_data_to_the_HLCA
  Repository to perform mapping of new datasets to the Human Lung Cell Atlas.
  ☆20Updated 2 years ago
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆27Updated last month
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆80Updated 7 months ago
• EngreitzLab / scE2G
  Pipeline to run scE2G
  ☆29Updated last week
• cantinilab / Circe
  Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.
  ☆27Updated last month