Alternatives and similar repositories for URD

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

• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆174Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆182Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆139Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated last year
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆112Updated last month
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆113Updated 3 months ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆95Updated 5 years ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆119Updated last year
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆191Updated 2 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆190Updated 3 weeks ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆98Updated 4 years ago
• neurorestore / Libra
  ☆178Updated 6 months ago
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆122Updated 2 years ago
• JiekaiLab / scTE
  ☆112Updated last year
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆97Updated 2 years ago
• rpolicastro / scProportionTest
  ☆74Updated 2 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆150Updated 3 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆128Updated last year
• quadbio / Pando
  Multiome GRN inference.
  ☆131Updated last year
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆169Updated 8 months ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆171Updated last month
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆215Updated last year
• tanaylab / metacell
  Metacell - Single-cell mRNA Analysis
  ☆117Updated 10 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆86Updated 6 years ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 5 years ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆117Updated last month
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆194Updated 2 years ago
• kharchenkolab / numbat
  Haplotype-aware CNV analysis from single-cell RNA-seq
  ☆199Updated last month
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆198Updated last week