Cyclum

Trajectory analyzer

A tool to identify circular trajectories in scRNA-seq data using an autoencoder with sinusoidal activations

Identify circular trajectories in scRNA-seq data using an autoencoder with sinusoidal activations

GitHub

20 stars
2 watching
4 forks
Language: Python
last commit: almost 3 years ago
Linked from 1 awesome list

artifical-neural-networklatent-process-inferencesingle-cell-rna-seqtrajectory-inference-methods

Backlinks from these awesome lists:

Related projects:

Repository Description Stars
kstreet13/slingshot An R package and Python implementation for analyzing developmental trajectories in single-cell RNA sequencing data 270
theislab/kbranches A software package to identify regions of interest in single-cell differentiation trajectories 5
phoenixding/scdiff Analyzes single-cell RNA-seq data to predict cell differentiation trajectories and associated transcription factors and genes. 28
kchen-lab/medalt Software for inferring evolutionary lineage of tumor cells from single cell copy number profiles 17
kieranrcampbell/phenopath A tool for inferring genomic trajectories from expression data with environmental and genetic covariates 10
dimenwarper/scimitar Analyzes single-cell measurements to infer morphing trajectories and their associated regulation. 7
d-seams/seams-core Analyzes molecular dynamics trajectories to infer structural properties of molecules 35
kchen-lab/scmarker An R package for identifying marker genes from single cell RNA sequencing data by applying statistical filters to select cell-type-specific gene markers 15
jw156605/slicer An R package implementing an algorithm for inferring cell trajectories based on gene expression data 12
dynverse/dynverse Supports the development and benchmarking of trajectory inference methods in single-cell biology 72
kharchenkolab/numbat Analyzes single-cell RNA-seq data to detect allele-specific copy number variations and infer lineage relationships in cancer cells 166
kstreet13/bioc2020trajectories An R package for comparing multiple conditions in single-cell RNA-seq trajectory inference 25
kchen-lab/bindsc A tool for integrating multi-omics data from single cell sequencing technologies to improve analysis accuracy and discovery of biological patterns. 34
catavallejos/basics An integrated Bayesian hierarchical model to analyze single-cell sequencing data 84
kchen-lab/cytospill Reduces noise in mass cytometry data by estimating spillover effects without relying on control experiments. 2