Alternatives and similar repositories for scachepy

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

• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated last year
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆43Updated 2 years ago
• Mr-Milk / SpatialTis
  Spatial analysis toolkit for single cell multiplexed tissue data
  ☆30Updated 10 months ago
• quon-titative-biology / scAlign
  A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batch…
  ☆38Updated 3 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆36Updated 2 weeks ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆27Updated 9 months ago
• NikolayOskolkov / NormalizeSingleCell
  Comparison of single cell normalization strategies
  ☆10Updated 3 years ago
• aristoteleo / dynast-release
  Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments
  ☆17Updated last year
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 5 years 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
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆37Updated last month
• almaan / eggplant
  ☆22Updated 2 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• BiomedicalMachineLearning / Spacell
  ☆26Updated 5 years ago
• SpatialTranscriptomicsResearch / st_viewer
  A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
  ☆14Updated 4 years ago
• BaderLab / AgingMouseBrainCCInx
  Predicted cell-cell interactions of the aging mouse brain
  ☆20Updated 5 years ago
• czbiohub-sf / molecular-cross-validation
  Calibrate and compare methods for denoising single-cell RNA-seq data
  ☆2Updated 4 years ago
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 4 years ago
• mainciburu / WAT3R
  Workflow for the Association of T-cell receptors from 3' single-cell RNA-seq (WAT3R)
  ☆21Updated 2 years ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆35Updated last week
• sararselitsky / FastPG
  Fast phenograph, CyTOF
  ☆25Updated 2 years ago
• klarman-cell-observatory / scPlot
  Single cell interactive plotting tools
  ☆23Updated 5 years ago
• limin321 / stmut
  Visualizing Somatic Alterations of 10X Spatial Transcriptomics Data
  ☆12Updated 8 months ago
• shenorrLabTRDF / cellAlign
  ☆41Updated 4 years ago
• GfellerLab / MetacellAnalysisToolkit
  Toolkit for metacell analysis
  ☆20Updated 11 months ago
• swaruplabUCI / ArchRtoSignac
  An R package performing object conversion from ArchRProject (ArchR) to Signac SeuratObject (Signac)
  ☆36Updated 10 months ago
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆25Updated 6 months ago
• const-ae / transformGamPoi-Paper
  ☆27Updated last year
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆33Updated last month
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago