Alternatives and similar repositories for numbat:

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

• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆183Updated 4 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆162Updated 6 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆133Updated 2 weeks ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆263Updated 2 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆122Updated 8 months ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆174Updated 2 months ago
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆158Updated this week
• neurorestore / Libra
  ☆159Updated 5 months ago
• powellgenomicslab / Nebulosa
  R package to visualize gene expression data based on weighted kernel density estimation
  ☆98Updated 11 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆136Updated 3 years ago
• JiekaiLab / scTE
  ☆104Updated 9 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆101Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆157Updated last year
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆136Updated 7 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆157Updated last month
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆197Updated last week
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆89Updated last year
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆140Updated 10 months ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆143Updated 2 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆108Updated 4 months ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆92Updated 4 years ago
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆95Updated 7 months ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆113Updated last month
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆172Updated this week
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 2 years ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆155Updated last year
• swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
  Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
  ☆88Updated 3 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆221Updated last year
• quadbio / Pando
  Multiome GRN inference.
  ☆115Updated 9 months ago