Alternatives and similar repositories for monkeybread

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

• wanglab-broad / CAST
  CAST package
  ☆40Updated 7 months ago
• Teichlab / sctk
  ☆38Updated 8 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 5 months ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆57Updated last week
• loosolab / scanpro
  A modular tool for proportion analysis in single-cell sequencing data
  ☆22Updated last month
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆19Updated last year
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆32Updated last week
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆33Updated this week
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆25Updated 5 months ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated last year
• almaan / eggplant
  ☆22Updated 2 years ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆52Updated 3 weeks ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆38Updated 6 months ago
• saezlab / mistyR
  Multiview Intercellular SpaTial modeling framework
  ☆59Updated 2 weeks ago
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆32Updated last month
• pachterlab / GFCP_2022
  RNA velocity validation
  ☆22Updated 3 years ago
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 2 months ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆27Updated last month
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆43Updated 2 years ago
• ajaynadig / TRADEtools
  ☆25Updated 3 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆28Updated 3 weeks ago
• satijalab / panhumanpy
  ☆17Updated last month
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆37Updated last month
• cellatlas / human
  ☆43Updated 7 months ago
• xleizi / easySCF
  ☆41Updated this week
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆18Updated 2 months ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆24Updated last year
• mvinyard / ArchR-h5ad
  Parse ArchR arrow files to anndata h5ad
  ☆12Updated last year
• 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 2 years ago
• secrierlab / SpottedPy
  Hotspot cluster distance analysis in spatial transcriptomic data
  ☆27Updated 4 months ago