Alternatives and similar repositories for capital:

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

• LieberInstitute / VistoSeg
  Image processing pipeline for spatial projects
  ☆15Updated last year
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆26Updated 7 months ago
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆36Updated 2 years ago
• Teichlab / sctk
  ☆33Updated 3 months ago
• yunguan-wang / Spacia
  ☆24Updated 2 months ago
• quadbio / simspec
  Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)
  ☆31Updated 10 months ago
• swaruplabUCI / ArchRtoSignac
  An R package performing object conversion from ArchRProject (ArchR) to Signac SeuratObject (Signac)
  ☆33Updated 4 months ago
• AllonKleinLab / cospar
  ☆26Updated last year
• MagpiePKU / EpiTrace
  Cell age determination by scATAC-seq and bulk-ATAC-seq
  ☆28Updated 4 months ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆39Updated 6 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆39Updated 10 months ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆24Updated 2 years ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• AmandaKedaigle / OrganoidAtlas
  Code to go along with https://doi.org/10.1016/j.cell.2022.09.010
  ☆20Updated 2 years ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆36Updated last week
• KChen-lab / bindSC
  Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…
  ☆34Updated last year
• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated 9 months ago
• CostaLab / scMEGA
  scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference
  ☆37Updated 3 months ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆26Updated last month
• msraredon / Connectome
  ☆28Updated 2 years ago
• OscarGVelasco / ClusterFoldSimilarity
  Calculate cluster similarity between clusters from different single cell datasets/batches/samples.
  ☆18Updated 6 months ago
• kharchenkolab / scITD
  Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition
  ☆55Updated 9 months ago
• CahanLab / epoch
  gene regulatory network reconstruction from scRNA-Seq
  ☆23Updated 2 years ago
• caleblareau / mtscATACpaper_reproducibility
  Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020
  ☆16Updated last year
• Winnie09 / Lamian
  ☆48Updated 5 months ago
• aertslab / ScoMAP
  ScoMAP is an R package to spatially integrate single-cell omics data into virtual cells and infer enhancer-to-gene relationships.
  ☆27Updated 3 years ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆47Updated 2 months ago
• dpeerlab / scKINETICS
  Code for scKINETICS (ISMB 2023)
  ☆21Updated last year
• PeterZZQ / CellPath
  ☆19Updated 2 years ago
• pachterlab / GFCP_2022
  RNA velocity validation
  ☆23Updated 2 years ago