Alternatives and similar repositories for crestree:

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

• quadbio / simspec
  Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)
  ☆31Updated 10 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
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 3 months ago
• caleblareau / mtscATACpaper_reproducibility
  Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020
  ☆16Updated last year
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆24Updated 2 years ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆26Updated last month
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆39Updated 6 months ago
• dpeerlab / pdac-progression
  ☆10Updated last year
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆49Updated 3 months ago
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆36Updated 2 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆38Updated 2 years ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆29Updated 3 years ago
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆26Updated 2 years ago
• lcmmichielsen / scHPL
  ☆34Updated 8 months ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆52Updated 3 months ago
• OscarGVelasco / ClusterFoldSimilarity
  Calculate cluster similarity between clusters from different single cell datasets/batches/samples.
  ☆18Updated 6 months ago
• mattjones315 / KPTracer-release
  Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"
  ☆11Updated last year
• wanglab-broad / CAST
  CAST package
  ☆27Updated 2 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 3 months 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
• jumphone / Vector
  Unsupervised Inference of Developmental Directions for Single Cells
  ☆21Updated last year
• KlugerLab / DAseq
  ☆39Updated 3 years ago
• JiekaiLab / SOT
  Single-cell Orientation Tracing
  ☆21Updated 2 years ago
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆21Updated 5 months ago
• gitter-lab / SINGE
  Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data
  ☆11Updated 6 months ago
• mvinyard / ArchR-h5ad
  Parse ArchR arrow files to anndata h5ad
  ☆14Updated last year
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆41Updated last year
• snehamitra / SCARlink
  ☆43Updated 4 months ago
• aet21 / SCENT
  Estimation of Single-Cell Potency with Single Cell Entropy
  ☆38Updated last year
• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated 9 months ago