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)
  ☆35Updated 6 months ago
• colomemaria / epiAneufinder
  R package to detect breakpoints and assign somies to scATAC-seq data
  ☆33Updated this week
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆69Updated 6 months ago
• 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…
  ☆24Updated 7 months ago
• tiroshlab / Spatial_Glioma
  Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper
  ☆41Updated 2 months ago
• gabrielakinker / CCLE_heterogeneity
  ☆54Updated last year
• kkdey / GSSG
  Gene Set + S2G strategy annotations analyzed for disease architecture
  ☆50Updated 2 years ago
• zktuong / ktplotspy
  Python library for plotting Cellphonedb results. Ported from ktplots R package.
  ☆48Updated this week
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆26Updated 3 months ago
• karthikj89 / scgenetics
  identifying disease critical cell types and programs from single cell RNAseq
  ☆52Updated 2 years ago
• Jiaxin-Fan / MuSiC2
  cell type deconvolution for multi-condition bulk RNA-seq data
  ☆23Updated 3 years ago
• perslab / CELLEX
  CELLEX (CELL-type EXpression-specificity)
  ☆39Updated last year
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆59Updated 4 months ago
• yunguan-wang / Spacia
  ☆27Updated 4 months ago
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆37Updated 2 years ago
• jbryois / scRNA_disease
  Code for our paper: https://www.biorxiv.org/content/10.1101/528463v1
  ☆18Updated 4 years ago
• SunXQlab / scMLnet
  Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks
  ☆26Updated 3 years ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆30Updated 8 months ago
• jumphone / Vector
  Unsupervised Inference of Developmental Directions for Single Cells
  ☆21Updated last year
• immunogenomics / SCENT
  Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA
  ☆71Updated 6 months ago
• phipsonlab / speckle
  R package for analysing single cell data
  ☆52Updated 2 years ago
• immunogenomics / sceQTL
  Code for single-cell eQTL analysis of memory T cell data in Nathan, et al. bioRxiv (2021)
  ☆16Updated last year
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆36Updated 4 months ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆64Updated 9 months ago
• Coolgenome / TCM
  Codes used in pan-T cell analysis
  ☆54Updated last year
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆72Updated 6 months ago
• JianYang-Lab / MeDuSA
  MeDuSA is a fine-resolution cellular deconvolution method that leverages scRNA-seq data as a reference to estimate cell-state abundance i…
  ☆41Updated 2 weeks ago
• ZJUFanLab / CellTalkDB
  A manually curated database of literature-supported ligand-receptor interactions in human and mouse
  ☆28Updated 8 months ago
• Teichlab / HCA_Heart_ver2
  ☆28Updated last year
• dengchunyu / scPagwas
  Obtain trait-relevant cell subpopulations by incorporating pathway activity transformed scRNA-seq data with GWAS data
  ☆17Updated 3 months ago