Alternatives and similar repositories for scranPY

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

• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆28Updated 10 months ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆62Updated 3 months ago
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆35Updated last month
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆50Updated 10 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆32Updated last year
• almaan / eggplant
  ☆22Updated 3 years ago
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆72Updated 6 months ago
• wanglab-broad / CAST
  CAST package
  ☆40Updated last year
• Teichlab / sctk
  ☆43Updated 2 weeks ago
• berenslab / umi-normalization
  Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…
  ☆40Updated 3 years ago
• ajaynadig / TRADEtools
  ☆33Updated 8 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
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆71Updated 2 years ago
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated 2 years ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆61Updated 3 weeks ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆56Updated 5 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆67Updated 2 weeks ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆50Updated 7 months ago
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆21Updated 4 years ago
• theislab / cross_system_integration
  ☆13Updated 2 months ago
• PMBio / SpatialDE
  Test genes for Spatial Variation
  ☆15Updated 11 months ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 11 months ago
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• quadbio / VoxHunt
  VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps
  ☆47Updated last year
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆56Updated last year
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆35Updated 6 months ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• willtownes / nsf-paper
  Nonnegative spatial factorization for multivariate count data
  ☆61Updated 2 years ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆37Updated this week