NEWS.md

In treestats: Phylogenetic Tree Statistics

Version 1.70.5

Updated references.

Version 1.70.4

Removed C++20 dependency

Version 1.70.3

Version numbering has improved to include the number of statistics available.

Version 1.1.3

• Reduced dependencies, Matrix and RSpectra are no longer required (but availability will improve speed!)
• calc_all_stats, calc_topology_stats and calc_brts_stats no longer return a named list, but return a named vector, for ease of rapid calculation across many trees

Version 1.1.2

• Removed dependencies to nodeSub by integrating functions to generate fully balanced and unbalanced into treestats.
• Renamed 'calc_balance_stats' to 'calc_topology_stats', and included only statistics that take the topology (without the branch lengths) into account.

Version 1.1.1

Added the following statistics:

• minimum(>0) eigenvalue of the Adjacency matrix

• maximum eigenvalue of the Adjacency matrix

• minimum(>0) eigenvalue of the Laplacian matrix

• maximum eigenvalue of the Laplacian matrix

• double cherries

• root imbalance

• four prong

Renamed eigenvector to eigen_centrality (in line with the analogous function in igraph)

Version 1.1.0

Add several new statistics:

• Colless-corrected

• Colless-Quadratic

• Total path index

• Total internal path index

• Average vertex depth

• Max Width over Max Depth

Version 1.0.7

• Added checks to each statistic verifying the statistic requires an ultrametric or binary tree - this should avoid some rare instances where memory access violations would pop up when providing a non-binary tree to a statistic assuming a binary input phylogeny. Many thanks to Fien Strijthaegen for pointing this out.

Version 1.0.6

• Added treeness statistic

Version 1.0.5

• Squashed a bug in imbalance_steps that would incorrectly calculate for smaller trees
• Added bioRxiv link to DESCRIPTION
• Added CITATION file

Version 1.0.4

• Corrected wording of variation in branch length statistics to correctly reflect variance, instead of variation

Version 1.0.3

First release to CRAN

treestats documentation built on Sept. 14, 2024, 9:08 a.m.