cellGeometry0.5.7 package

Add noise to count data

Adjust count matrix by library size

Identify cell markers

Collapse groups in cellMarkers object

Compensation heatmap

Gene signature cosine similarity matrix

Deconvolute bulk RNA-Seq using single-cell RNA-Seq signature

Diagnostics for cellMarker signatures

Fix in missing genes in bulk RNA-Seq matrix

Fix cellMarkers signature with no cell groups

Vector based best marker selection

Converts ensembl gene ids to symbols

Generate random cell number samples

Mean Objects

Merge cellMarker signatures

Calculate R-squared and metrics on deconvoluted cell subclasses

Plot compensation analysis

Residuals plot

Scatter plots to compare deconvoluted subclasses

Plot tuning curves

Quantile-quantile plot

Quantile mapping function between two scRNA-Seq datasets

Rank distance angles from a cosine similarity matrix

Reduce noise in single-cell data

Extract Deconvolution Residuals

Regression Deletion Diagnostics

Single-cell apply a function to a matrix split by a factor

Single-cell mean log gene expression across cell types

Gene signature heatmap

Simulate pseudo-bulk RNA-Seq

Apply a function to a big matrix by slicing

Specificity plot

Spillover heatmap

Stacked bar plot

Summarising deconvolution tuning

Tune deconvolution parameters

Update cellMarkers object

Cell subclass violin plot