Alternatives and similar repositories for SCeptre

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

• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆88Updated last year
• lanagarmire / Asgard
  ☆43Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆89Updated last week
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆129Updated 4 months ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 7 months ago
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆64Updated last year
• s175573 / GIANA
  Ultrafast TCR clustering algorithm based on geometric isometry
  ☆68Updated 9 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆133Updated 2 years ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆135Updated last month
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆107Updated 2 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆74Updated 5 months ago
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆117Updated this week
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆99Updated 4 months ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆113Updated last year
• immunoengineer / gliph
  Grouping of Lymphocyte Interactions by Paratope Hotspots
  ☆95Updated 4 years ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year
• bedapub / besca
  BESCA (Beyond Single Cell Analysis) offers python functions for single-cell analysis
  ☆50Updated last month
• alexyermanos / Platypus
  R package for the analysis of single-cell immune repertoires
  ☆43Updated 5 months ago
• kmayerb / tcrdist3
  flexible CDR based distance metrics
  ☆66Updated 11 months ago
• phbradley / tcr-dist
  Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
  ☆85Updated 3 years ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆79Updated 6 months ago
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆214Updated this week
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆63Updated last week
• SmritiChawla / Precily
  ☆31Updated 2 years ago
• mousepixels / sanbomics
  bioinformatics plotting and tools
  ☆59Updated last year
• omnideconv / omnideconv
  Unified access to several second-generation deconvolution methods
  ☆73Updated last week
• BIMSBbioinfo / VoltRon
  Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration
  ☆101Updated last week
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 2 months ago
• SchubertLab / mvTCR
  ☆53Updated 8 months ago