Alternatives and similar repositories for scPagwas:

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

• swaruplabUCI / ArchRtoSignac
  An R package performing object conversion from ArchRProject (ArchR) to Signac SeuratObject (Signac)
  ☆36Updated 8 months ago
• tiroshlab / Spatial_Glioma
  Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper
  ☆45Updated 4 months ago
• gabrielakinker / CCLE_heterogeneity
  ☆55Updated last year
• lfranzen / spatial-lung-fibrosis
  Repository for all R scripts used for the bioinformatic analyses of the mouse and human 10x Genomics Visium spatially resolved transcript…
  ☆26Updated 9 months ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆73Updated 8 months ago
• zktuong / ktplotspy
  Python library for plotting Cellphonedb results. Ported from ktplots R package.
  ☆50Updated 2 weeks ago
• colomemaria / epiAneufinder
  R package to detect breakpoints and assign somies to scATAC-seq data
  ☆37Updated last month
• yunguan-wang / Spacia
  ☆27Updated this week
• SunXQlab / scMLnet
  Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks
  ☆26Updated 3 years ago
• Jiaxin-Fan / MuSiC2
  cell type deconvolution for multi-condition bulk RNA-seq data
  ☆25Updated 3 years ago
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆36Updated 4 years ago
• ccruizm / GBmap
  Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolu…
  ☆55Updated 2 years ago
• Janezjz / cellanova
  CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration
  ☆47Updated 6 months ago
• jumphone / Vector
  Unsupervised Inference of Developmental Directions for Single Cells
  ☆21Updated last year
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆68Updated 11 months ago
• quadbio / simspec
  Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)
  ☆31Updated last year
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆64Updated 6 months ago
• immunogenomics / sceQTL
  Code for single-cell eQTL analysis of memory T cell data in Nathan, et al. bioRxiv (2021)
  ☆19Updated last year
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆37Updated 2 years ago
• xleizi / easySCF
  ☆40Updated 5 months ago
• karthikj89 / scgenetics
  identifying disease critical cell types and programs from single cell RNAseq
  ☆54Updated 2 years ago
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆30Updated this week
• ZJUFanLab / CellTalkDB
  A manually curated database of literature-supported ligand-receptor interactions in human and mouse
  ☆30Updated 10 months ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆31Updated 3 years ago
• kkdey / GSSG
  Gene Set + S2G strategy annotations analyzed for disease architecture
  ☆51Updated 2 years ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆28Updated 5 months ago
• ChanLab-UTSW / BreastCancer_Integrated
  ☆28Updated 2 months ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆31Updated 11 months ago
• liziyie / Onco-fetal-CAF-in-HCC
  ☆20Updated last year
• AllenInstitute / mouse_aging_scRNAseq
  analysis scripts related to Jin et al manuscript on scRNA seq in aging mouse brain
  ☆17Updated 10 months ago