Alternatives and similar repositories for SCOTIA

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

• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆33Updated 11 months ago
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆26Updated 2 years ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆65Updated 7 months ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆28Updated 6 months ago
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 2 months ago
• Teichlab / snp2cell
  cell type specific, trait-associated gene regulation
  ☆26Updated 2 months ago
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆37Updated 4 years ago
• SaskiaFreytag / spatial_brain_cancer
  ☆13Updated last year
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆26Updated 7 months ago
• Single-Cell-Genomics-Group-CNAG-CRG / TonsilAtlas
  Scripts and notebooks to reproduce all analysis from Massoni-Badosa et al. (2022)
  ☆28Updated 4 months ago
• chloelulu / scMayoMap
  ☆22Updated last year
• phillipnicol / scDist
  Robust identification of perturbed cell types in single-cell RNA-seq data
  ☆31Updated 6 months ago
• alserglab / mascarade
  Generate masks for scRNA-seq clusters on t-SNE or UMAP plots
  ☆26Updated last month
• kaishumason / NicheDE
  NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.
  ☆18Updated 7 months ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆32Updated 4 years ago
• hernet / transcriptional-map-nk
  We describe a transcriptional reference map of human natural killer (NK) cells based on analysis of scRNA-seq data from both blood and ti…
  ☆11Updated 7 months ago
• jlaffy / infercna
  Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data
  ☆36Updated last year
• YangJAT / HCA
  Hierarchical Cell Annotation
  ☆20Updated 6 months ago
• theislab / cellrank2_reproducibility
  CellRank 2's reproducibility repository.
  ☆11Updated 8 months ago
• atakanekiz / CIPR-Package
  Cluster Identity Predictor (R package implementation)
  ☆20Updated 3 years ago
• jeongdo801 / scNOVA
  scNOVA : Single-Cell Nucleosome Occupancy and genetic Variation Analysis
  ☆11Updated last year
• UPSUTER / GEMLI
  ☆32Updated 4 months ago
• MarioniLab / EmptyDropsMultiome
  Removing empty droplets in multiome datasets
  ☆16Updated last year
• Teichlab / PanGIAtlas
  Integration of gut cell atlases
  ☆25Updated 3 months ago
• KramannLab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆21Updated 2 years ago
• ChanLab-UTSW / BreastCancer_Integrated
  ☆30Updated 3 months ago
• BernsteinLab / Myeloid-Glioma
  Scripts used to perform the analyses to study the Biology of Myeloid Cells in Glioma Microenvironments
  ☆17Updated 3 weeks ago
• yanailab / PanCancer
  Data available at: https://www.dropbox.com/sh/jh4s57kgbb0rnxe/AABoMK466cGc1OKsOuFN10wca?dl=0 and https://nyulangone-my.sharepoint.com//g/…
  ☆30Updated 2 years ago
• liziyie / Onco-fetal-CAF-in-HCC
  ☆20Updated last year
• Banovich-Lab / Spatial_PF
  ☆28Updated 3 months ago