Alternatives and similar repositories for eggplant

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

• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆60Updated last month
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆55Updated 3 months ago
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆26Updated 8 months ago
• rajewsky-lab / spacemake
  ☆44Updated last month
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆39Updated 3 months ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆29Updated this week
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆34Updated 4 months ago
• Teichlab / sctk
  ☆40Updated last month
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 4 years ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆45Updated 3 years ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 2 years ago
• sfortma2 / scranPY
  A python implementation of scran computeSumFactors: normalization by deconvolution for single-cell RNA-sequencing
  ☆35Updated 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
  ☆54Updated last year
• wanglab-broad / CAST
  CAST package
  ☆40Updated 10 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 8 months ago
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆72Updated 3 months ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 9 months ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆36Updated 3 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆30Updated 9 months ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆50Updated last year
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆26Updated last year
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆28Updated 11 months ago
• theMILOlab / SPATA
  SPATA Package for spatial gene expression analysis
  ☆21Updated 3 years ago
• limin321 / stmut
  Visualizing Somatic Alterations of 10X Spatial Transcriptomics Data
  ☆12Updated 10 months ago
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆41Updated 3 weeks ago
• FridleyLab / spatialGE
  Methods for visualization and analysis of spatially-resolved gene expression
  ☆21Updated last month
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated last year
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆19Updated last year
• klarman-cell-observatory / hdst
  ☆19Updated 5 years ago