Alternatives and similar repositories for cytograph

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

• GregorySchwartz / tooManyCellsR
  An R wrapper for too-many-cells, for clustering single cells and analyzing cell clade relationships with colorful visualizations.
  ☆25Updated 5 years ago
• BUStools / BUS_notebooks_R
  R vignettes for processing BUS format single-cell RNA-seq files
  ☆20Updated 5 years ago
• shenorrLabTRDF / cellAlign
  ☆41Updated 4 years ago
• KChen-lab / SCMarker
  Marker gene selection from scRNA-seq data
  ☆15Updated 4 years ago
• PoolLab / generecovery
  ☆29Updated 2 years ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆25Updated last year
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• ati-lz / HCA_Benchmarking
  This repository contains HCA Benchmarking codes
  ☆26Updated 5 years ago
• HelenaLC / muscat-comparison
  ☆12Updated last year
• bjstewart1 / kidney_sc_immune
  Repository for scRNAseq study of human kidneys
  ☆15Updated 5 years ago
• klarman-cell-observatory / scSVA
  Single-cell Scalable Visualization and Analytics
  ☆25Updated 6 years ago
• JinmiaoChenLab / FastIntegration
  FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
  ☆23Updated 7 months ago
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆18Updated 4 years ago
• chanwkimlab / MarcoPolo
  MarcoPolo is a clustering-free approach to the exploration of bimodally expressed genes along with group information in single-cell RNA-s…
  ☆20Updated 6 months ago
• shendurelab / single-cell-ko-screens
  Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…
  ☆26Updated 3 years ago
• GreenleafLab / ChrAccR
  Analyzing chromatin accessibility data in R
  ☆18Updated last year
• csoneson / rna_velocity_quant
  Evaluation of the effect of quantification choices on RNA velocity estimates
  ☆27Updated 3 years ago
• LTLA / batchelor
  Clone of the Bioconductor repository for the batchelor package.
  ☆16Updated 2 months ago
• mckennalab / SingleCellLineage
  Updated scripts and pipelines for processing GESTALT data at single-cell resolution
  ☆19Updated 4 years ago
• crazyhottommy / scCustomize
  Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆16Updated 3 years ago
• single-cell-genetics / singlecell_neuroseq_paper
  Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation
  ☆21Updated 11 months ago
• cole-trapnell-lab / monocle2-rge-paper
  Scripts needed to generate the figures for the Monocle 2 paper (Qiu et al, 2017)
  ☆29Updated 4 years ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆28Updated 3 years ago
• salzman-lab / SICILIAN
  ☆22Updated 11 months ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• ChristophH / in-lineage
  Data and code for the paper "Developmental diversification of cortical inhibitory interneurons"
  ☆24Updated 6 years ago
• pachterlab / GFCP_2022
  RNA velocity validation
  ☆22Updated 3 years ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆45Updated last year
• MSingerLab / COMETSC
  COMET Single-Cell Marker Detection tool
  ☆31Updated 2 years ago