Alternatives and similar repositories for dictys

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

• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆78Updated 3 weeks ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆113Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆67Updated 6 months ago
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆83Updated 9 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆126Updated 8 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆105Updated 11 months ago
• YosefLab / popV
  ☆87Updated this week
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆107Updated 2 years ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆69Updated 2 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆79Updated 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 3 years ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆116Updated last year
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 8 months ago
• cantinilab / Circe
  Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.
  ☆33Updated last month
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆69Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆80Updated 11 months ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆71Updated 2 years ago
• theislab / regvelo
  inferring regulatory cellular dynamics
  ☆61Updated 3 months ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆94Updated 7 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆117Updated 2 months ago
• lilab-bcb / harmony-pytorch
  ☆61Updated 7 months ago
• omnideconv / omnideconv
  Unified access to several second-generation deconvolution methods
  ☆88Updated last week
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆49Updated last year
• rajewsky-lab / novosparc
  ☆131Updated 2 years ago
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆143Updated 3 weeks ago
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆93Updated 4 months ago
• snehamitra / SCARlink
  ☆61Updated last month
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆95Updated last year
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆72Updated 4 years ago