nmatzke
For my work and CV, please see: http://phylo.wikidot.com/nicholas-j-matzke
The Australian National UniversityCanberra, Australia
Pinned Repositories
3diphy
Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n for
BEASTmasteR
R code for writing Beast2 XML (especially morphology/tip-dating)
bgbwk
Phylogenetic biogeography workshop files
BioGeoBEARS
BioGeography with Bayesian (and likelihood) Evolutionary Analysis with R Scripts
bioinfRhints
Bioinformatics hints in R
biopython
Nick Matzke's git mirror of the Biopython CVS repository, for GSoC 2009 project: BioGeography module for biopython
PhyBEARS.jl
Phylogenetic biogeography SSE models for large state spaces
phyloENM
Phylogenetic Environmental Niche Modeling
rexpokit
rexpokit: R Wrappers for EXPOKIT; Other Matrix Functions
nmatzke's Repositories
nmatzke/BioGeoBEARS
BioGeography with Bayesian (and likelihood) Evolutionary Analysis with R Scripts
nmatzke/3diphy
Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n for
nmatzke/BEASTmasteR
R code for writing Beast2 XML (especially morphology/tip-dating)
nmatzke/biopython
Nick Matzke's git mirror of the Biopython CVS repository, for GSoC 2009 project: BioGeography module for biopython
nmatzke/PhyBEARS.jl
Phylogenetic biogeography SSE models for large state spaces
nmatzke/phyloENM
Phylogenetic Environmental Niche Modeling
nmatzke/bgbwk
Phylogenetic biogeography workshop files
nmatzke/bioinfRhints
Bioinformatics hints in R
nmatzke/rexpokit
rexpokit: R Wrappers for EXPOKIT; Other Matrix Functions
nmatzke/Ashman_etal_Gehyra
Supplementary data and code for Ashman et al. study of Australian Gehyra
nmatzke/cladoRcpp
cladoRcpp: C++ implementations of phylogenetic cladogenesis calculations
nmatzke/CPs
Masafumi CPs project
nmatzke/DarwinsBulldogs
Rediscovering the anti-racist legacies of Darwin, Huxley, and other great evolutionists.
nmatzke/ENMTools
ENMTools R Package
nmatzke/Klaus_traits
Supplemental Data for Klaus & Matzke paper on trait-dependent dispersal
nmatzke/M21
Supplemental Files for Matzke (2021), rebutting Ree & Sanmartin (2018)
nmatzke/Matzke_Irmis_2018_PeerJ_autapomorphies_SuppData
Supplemental Data for Matzke & Irmis (2018), "Including autapomorphies is important for paleontological tip-dating with clocklike data, but not with non-clock data." PeerJ 6:e4553. https://doi.org/10.7717/peerj.4553 Permanent Zenodo archive of Supplemental Data: https://zenodo.org/badge/latestdoi/128717052
nmatzke/Matzke_R_binaries
Archiving CRAN binaries of R packages (as CRAN does not)
nmatzke/minbaru
Replicating the "baraminic distance correlation" calculations that creationists use on cladistic morphology datasets. Should be entertaining.
nmatzke/modiscdata
This package contains data files for use in the examples in the "modiscloud" package. The files are MODIS Level 2 Cloud Product files, downloaded from the NASA MODIS archive, or TIFs derived from them.
nmatzke/modiscloud
Package for processing downloaded MODIS Cloud Product HDF files and derived files. Specifically, MOD35_L2 cloud product files, and the associated MOD03 geolocation files (for MODIS-TERRA); and MYD35_L2 cloud product files, and the associated MYD03 geolocation files (for MODIS-AQUA). The package will be most effective if the user installs MRTSwath (MODIS Reprojection Tool for swath products; https://lpdaac.usgs.gov/tools/modis_reprojection_tool_swath), and adds the directory with the MRTSwath executable to the default R PATH by editing ~/.Rprofile.
nmatzke/njmtools
Nifty Jeneric Methods for R by Nicholas Joseph Matzke (practicing GitHub)
nmatzke/nmatzke.github.io
Dr. Nicholas J. Matzke: Integrating Ecological and Historical Biogeography with Statistical Phylogenetics
nmatzke/Ordovician_dispersal
Supplementary Material for Lam, Stigall, and Matzke (2017), "Dispersal in the Ordovician"
nmatzke/pandasthumb.github.io
nmatzke/PhyloBits.jl
Phylogenetic tree tables and other phylogenetic utilities. (Functions include: prt(tr) and other utilities. Also includes the PhyloNetworks tree object/reader/writer, with minimal dependencies.)
nmatzke/practice1
Practicing registering C routine etc. for R packages
nmatzke/reviews
Writing reviews of academic papers
nmatzke/test
nmatzke/treeflaws
Collection of tree files with parsing problems in various programs; for tests, debugging. Feel free to join/contribute!