Alternatives and similar repositories for paper-data:

Users that are interested in paper-data are comparing it to the libraries listed below

• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated last year
• caleblareau / mtscATACpaper_reproducibility
  Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020
  ☆16Updated last year
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆40Updated 3 months 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
• AllonKleinLab / cospar
  ☆26Updated last year
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆24Updated 2 years ago
• KlugerLab / GeneTrajectory-python
  Python implementation of Gene Trajectory
  ☆25Updated 8 months ago
• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆33Updated 3 years ago
• wycwycpku / RSCORE
  ☆25Updated 3 years ago
• morris-lab / BiddyetalWorkflow
  This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.
  ☆32Updated 10 months ago
• quadbio / organoid_regulomes
  Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids
  ☆28Updated last year
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆34Updated this week
• snehamitra / SCARlink
  ☆50Updated 7 months ago
• ChengxiangQiu / tome_code
  The scripts used for the analyses in TOME project
  ☆24Updated 5 months ago
• dpeerlab / pdac-progression
  ☆10Updated 2 years ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆49Updated this week
• Single-Cell-Genomics-Group-CNAG-CRG / TonsilAtlas
  Scripts and notebooks to reproduce all analysis from Massoni-Badosa et al. (2022)
  ☆28Updated 3 months ago
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆25Updated 6 months ago
• xiaoyeye / TFvelo
  ☆43Updated last year
• mvinyard / ArchR-h5ad
  Parse ArchR arrow files to anndata h5ad
  ☆13Updated last year
• QuKunLab / APEC
  Single cell epigenomic clustering based on accessibility pattern
  ☆23Updated 2 years ago
• liulab-dfci / lisa2
  ☆30Updated 2 years ago
• theislab / regvelo
  inferring regulatory cellular dynamics
  ☆41Updated this week
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆28Updated 5 months ago
• theislab / cross_system_integration
  ☆12Updated last month
• AmandaKedaigle / OrganoidAtlas
  Code to go along with https://doi.org/10.1016/j.cell.2022.09.010
  ☆20Updated 3 years ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆43Updated 10 months ago
• HYsxe / PRINT
  ☆35Updated 8 months ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆19Updated last year
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 2 years ago