v0.15.0

PhyloNetworks v0.15.0

Diff since v0.14.3

new features in newick network parsing:

• faster reading of multiple phylogenies
• negative edge lengths are now read, but set to 0
• nexus-style comments are allowed (and ignored)

breaking change:

• nulldeviance considers the null model without an intercept if the input model doesn't have one.

bug fixes in:

• reading of fasta files, with ambiguous sites
• deleteleaf! for highly non-tree-child networks
• hybridlambdaformat with existing original internal node names, e.g. when read as bootstrap values, that caused Hybrid-Lambda to fail silently.

Closed issues:

• deleteleaf method bug (#153)
• Minor doc typo (#166)
• PhyloNetworks prevents BioSequences package upgrade (#168)
• Speed of readMultiTopology compared to map and fmap with large amount of trees (#170)
• readTopology with negative edge lengths (#176)

Merged pull requests:

• Fast read multi topology (#173) (@gaballench)
• CompatHelper: bump compat for StatsFuns to 1, (keep existing compat) (#174) (@github-actions[bot])
• Update nulldeviance for models with no intercept (#175) (@pbastide)
• newick parsing: handle negative edge lengths, comments (#177) (@cecileane)