NEWS.md
In phillipnicol/pcDiffPop: Robust Identification of Perturbed Cell Types in Single-cell RNA-seq

This update adds labels to distGenes to help users better interpret the direction of the expression change for each gene.

This update adds code to automatically skip cell types where any fixed or random effects have only one sampling level.

This update improves the functions in plotting.R, adds input checking to scDist(), and adds some missing documentation. See PR 8 and 10.

This update primarily addresses bugs in distGenes.

This update contains new functionality for post-hoc analysis and simulated data.

New functionality:

The distGenes function can be used to visualize the genes associated with the perturbation.
The generation of simulated data is simplified with the simData function.
The scDist_tree function performs the analysis at different resolutions of a given clustering.
condition_v_celltype_distance compares the condition perturbation to the inter-cell-type distances, providing a possible way to diagnose issues in annotation.

Changes to existing functionality:

The scDist function now has a weights argument to allow different genes to be weighted differently in the calculation of the distance.

Initial release

phillipnicol/pcDiffPop documentation built on Nov. 29, 2024, 6:06 p.m.

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

Version 1.1.4 November 24, 2024