Alternatives and similar repositories for concordex

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

• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆65Updated last week
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 2 weeks ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆48Updated 2 months ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆46Updated 8 months ago
• wanglab-broad / CAST
  CAST package
  ☆42Updated last year
• estellad / SpatialExperimentIO
  Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.
  ☆17Updated 4 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
  ☆57Updated last year
• theislab / troutpy
  Package for the analysis of Transcripts outside segmented cells in ST data
  ☆25Updated last week
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆69Updated 3 months ago
• nf-core / spatialxe
  ☆24Updated last week
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆66Updated 7 months ago
• Sanofi-Public / spatialone-pipeline
  Spatial One
  ☆30Updated last year
• JCVenterInstitute / NSForest
  A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA seq…
  ☆66Updated 5 months ago
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆30Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆81Updated 11 months ago
• theislab / multimil
  Weakly supervised learning uncovers phenotypic signatures in single-cell data
  ☆38Updated last month
• rajewsky-lab / spacemake
  ☆49Updated last week
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated 2 years ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆36Updated 8 months ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆34Updated last month
• Teichlab / sctk
  ☆45Updated last week
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆46Updated 5 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆34Updated last year
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆56Updated 8 months ago
• klarman-cell-observatory / hdst
  ☆19Updated 6 years ago
• gerstung-lab / BaSISS
  Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
  ☆27Updated 3 years ago
• almaan / eggplant
  ☆22Updated 3 years ago
• p-gueguen / Spatial_transcriptomics_tools
  List of Spatial Transcriptomics related Tools organized per category
  ☆102Updated last week
• NygenAnalytics / CyteType
  Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data
  ☆98Updated 3 weeks ago