Algorithms

Mellon: Estimation of cell-state density from single-cell phenotypic landscapes
Link | Reference

SEACells: Inference of transcriptional and epigenomic cellular states from single-cell genomics data
Link | Reference

2for1separator: Deconvolve accessible and silenced regulomes in CUT&Tag2for1 data
Link | Reference

Harmony: Harmonize single-cell data measured at discrete time points.
Link | Reference

Palantir: Single-cell trajectory detection algorithm to model continuities in cell-state transitions and cell-fate choices.
Link | Reference

Wishbone: Single-cell trajectory detection algorithm to model bifurcating trajectories.
Link | Reference

SeqGL: De-novo motif discovery algorithm using k-mer models.
Link | Reference

RegulatorInference: Regression models for identifying dysregulated regulators in disease.
Link | Reference

Datasets

Single-cell RNA-seq landscape of mouse gut endoderm development
Data explorer | Raw data

Single-cell RNA-seq dataset of CD34+ cells from human bone marrow
Processed data and meta data | Raw data

Cytof data of mouse thymic development
 FCS files