Alternatives and similar repositories for monkeybread

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

• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆39Updated 3 months ago
• Teichlab / sctk
  ☆40Updated last week
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆33Updated last week
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆36Updated 2 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
  ☆54Updated last year
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆59Updated last month
• wanglab-broad / CAST
  CAST package
  ☆40Updated 9 months ago
• secrierlab / SpottedPy
  Hotspot cluster distance analysis in spatial transcriptomic data
  ☆29Updated 6 months ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆25Updated last year
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆59Updated last week
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 2 years ago
• loosolab / scanpro
  A modular tool for proportion analysis in single-cell sequencing data
  ☆22Updated 3 months ago
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆19Updated last year
• almaan / eggplant
  ☆22Updated 3 years ago
• cellatlas / human
  ☆44Updated 9 months ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 2 years ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 8 months ago
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆26Updated 7 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆63Updated 3 weeks ago
• lkmklsmn / insct
  scRNAseq integration with triplet neural networks
  ☆41Updated 2 years ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated last year
• limin321 / stmut
  Visualizing Somatic Alterations of 10X Spatial Transcriptomics Data
  ☆12Updated 9 months ago
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆34Updated 3 months ago
• saezlab / mistyR
  Multiview Intercellular SpaTial modeling framework
  ☆64Updated 2 months ago
• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆35Updated 6 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆43Updated last week
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆30Updated 5 months ago
• sfortma2 / scranPY
  A python implementation of scran computeSumFactors: normalization by deconvolution for single-cell RNA-sequencing
  ☆35Updated last year
• ajaynadig / TRADEtools
  ☆29Updated 5 months ago
• rajewsky-lab / spacemake
  ☆44Updated 2 weeks ago