# Inferring Developmental Chronologies from Single-Cell RNA Sequencing Data

## Documentation for package ‘SCORPIUS’ version 1.0.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

SCORPIUS-package | SCORPIUS: Trajectory inference from single-cell RNA sequencing data.
apply_quantile_scale | Apply a quantile scale.
apply_uniform_scale | Apply a uniform scale
draw_trajectory_heatmap | Draw time-series heatmap
draw_trajectory_plot | Visualise SCORPIUS
evaluate_dim_red | Evaluate the dimensionality reduction
evaluate_trajectory | Evaluate the inferred timeline
extract_modules | Extract modules of features
generate_dataset | Generate a synthetic dataset
gene_importances | Calculate the importance of a feature
ginhoux | scRNA-seq data of dendritic cell progenitors.
infer_initial_trajectory | Infer an initial trajectory through space
infer_trajectory | Infer linear trajectory through space
knn | k Nearest Neighbour indices and distances
knn_distances | k Nearest Neighbour distances
reduce_dimensionality | Dimensionality reduction
reverse_trajectory | Reverse a trajectory
scale_quantile | Calculate and apply a quantile scale
scale_uniform | Scaling and centering of matrix-like objects
SCORPIUS | SCORPIUS: Trajectory inference from single-cell RNA sequencing data.