PhyloPars statistics

Tool stats & trends

Looking to identify usage trends or leading experts?


PhyloPars specifications


Unique identifier OMICS_13168
Name PhyloPars
Interface Web user interface
Restrictions to use None
Input data Phylogeny file
Computer skills Basic
Stability Stable
Maintained Yes



  • person_outline Jorn Bruggerman

Publication for PhyloPars

PhyloPars citations


The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes

Genome Biol Evol
PMCID: 5906920
PMID: 29684203
DOI: 10.1093/gbe/evy058
call_split See protocol

[…] the directionality of changes in repeat content and genome sizes, the time-calibrated phylogeny () was used to reconstruct ancestral states at each internal node. This was done with the ML algorithm “phylopars” implemented in the R package Rphylopars (), assuming a Brownian Motion model of trait evolution. Ancestral state reconstruction was performed separately for numbers of DNA transposons, LINE […]


Rapid maximum likelihood ancestral state reconstruction of continuous characters: A rerooting‐free algorithm

Ecol Evol
PMCID: 5395464
PMID: 28428869
DOI: 10.1002/ece3.2837

[…] rsively traversing the tree in preorder (root to tips) to compute quantities of interest at each internal node. The algorithm is implemented in the R package Rphylopars in the functions anc.recon and phylopars (Goolsby, Bruggeman, & Ané, ). […]


Predicting climate change effects on wetland ecosystem services using species distribution modeling and plant functional traits

PMCID: 4288999
PMID: 25576286
DOI: 10.1007/s13280-014-0593-9
call_split See protocol

[…] e LEDA traitbase (Kleyer et al. ; Electronic Supplementary Material, Table S3). Gaps in trait data were filled with estimates based on phylogenetic relationships (generated with phyloGenerator) using PhyloPars (Bruggeman et al. ). This approach resulted in complete datasets for the continuous traits: specific leaf area (SLA), canopy height (CH), and root depth (RD) (Table ). SLA is a good positive […]


Looking to check out a full list of citations?

PhyloPars institution(s)
Department of Theoretical Biology, Faculty of Earth & Life Sciences, Amsterdam, Netherlands; Centre for Integrative Bioinformatics, VU University Amsterdam, Amsterdam, Netherlands
PhyloPars funding source(s)
This work was supported by the Computational Life Sciences program of the Netherlands, Organisation for Scientific Research (635.100.009) and by the European Commission FP6 Programme.

PhyloPars reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review PhyloPars