Ecological Niche Modeling (ENM) / Species Distribution Modeling (SDM)
Modeling & Related Tools
- BioMapper v4 (http://www2.unil.ch/biomapper/)
- Desktop GARP v1.1.6 (http://www.nhm.ku.edu/desktopgarp/)
- DIVA-GIS v7.5 (http://www.diva-gis.org/)
- ENMTools v1.4.3 (http://enmtools.blogspot.com/)
- Google Earth v7 (http://www.google.com/earth/index.html)
- GPSspg Portal (http://www.gpsspg.com/maps.htm)
- GRASS (Geographic Resources Analysis Support System) GIS v6.4.3 (http://grass.osgeo.org/)
- Marxan v2.43 (http://www.uq.edu.au/marxan/)
- MAXENT v3.3.3k (http://www.cs.princeton.edu/~schapire/maxent/)
- ModEco v3.02 (http://gis.ucmerced.edu/ModEco/)
- OpenModeller v1.2 (http://openmodeller.sourceforge.net/)
- PASSaGE (Pattern Analysis, Spatial Statistics and Geographic Exegesis) v2 (http://www.passagesoftware.net/)
- QGIS (Quantum GIS) v1.8 (http://www.qgis.org/)
- SAM (Spatial Analysis in Macroecology) v4.0 (http://www.ecoevol.ufg.br/sam/)
- Zonation v3.1.10 (http://cbig.it.helsinki.fi/software/zonation/)
Books & Tutorials
- Franklin J (2009) Mapping Species Distributions: Spatial Inference and Prediction. Cambridge University Press, New York. (Weblink)
- Scheldeman X, van Zonneveld M (2010) Training Manual on Spatial Analysis of Plant Diversity and Distribution. Biodiversity International, Rome. (PDF & Exercise Data)
- Drew CA, Wiersma YF, Huettmann F (2011) Predictive Species and Habitat Modeling in Landscape Ecology: Concepts and Applications. Springer, New York. (Weblink-1 | Weblink-2)
- Hijmans RJ, Elith J (2013) Species Distribution Modeling with R. (PDF)
- Young N, Carter L, Evangelista P (2011) A MaxEnt Model v3.3.3e Tutorial (ArcGIS v10). (PDF)
- Phillips S (2010) A Brief Tutorial on Maxent. (Weblink | PDF)
- Pearson RG. (2010) Species’ Distribution Modeling for Conservation Educators and Practitioners. (Weblink-1 | Weblink-2 | PDF)
Sources of Spatial and Other Relevant Data
Species Presence Points:
- The Global Biodiversity Information Facility (GBIF) (http://www.gbif.org)
- The Global Invasive Species Database (GISD) (http://www.issg.org/database/welcome/)
- Chinese Virtual Herbarium (CVH) (http://www.cvh.org.cn)
- Chinese Virtual Herbarium (CVH) - IBCAS Branch (http://pe.ibcas.ac.cn/sptest/cvh_pe_1.htm)
- Sichuan Virtual Herbarium for Medicinal Plants (http://plant.sacms.com.cn/search.asp)
- Specimen Resources Sharing Platform for Education (http://mnh.scu.edu.cn)
- Chinese Field Herbarium (http://www.nature-museum.net)
- Plant Photo Bank of China (PPBC) (http://www.plantphoto.cn)
- South China Animal Resource Database (http://www.swanimal.csdb.cn)
- GPSspg Portal (http://www.gpsspg.com/maps.htm)
- GEOLocate (http://www.museum.tulane.edu/geolocate/)
- Global Country Boundaries (v2011) (http://www.diva-gis.org/data/misc/countries_shp.zip)
- Country-Level Data (http://www.diva-gis.org/gdata)
- Tropicos, Missouri Botanical Garden (http://www.tropicos.org)
- GRIN Taxonomy for Plants (http://www.ars-grin.gov/cgi-bin/npgs/html/index.pl)
- WorldClim - Current, Future and Past Climate Data (http://www.worldclim.org)
- CCAFS Portal - Current, Future and Past Climate Data (http://www.ccafs-climate.org/data/)
- World Soil Information (ISRIC) Data (http://www.isric.org/content/data)
- Global Aridity and PET Database (http://www.cgiar-csi.org/data/global-aridity-and-pet-database)
- Global High-Resolution Soil-Water Balance (http://www.cgiar-csi.org/data/global-high-resolution-soil-water-balance)
- SRTM 90m Digital Elevation Data (http://srtm.csi.cgiar.org)
- Global Land Cover Facility (http://glcf.umiacs.umd.edu/index.shtml)
- Global Land Cover 2000 (http://bioval.jrc.ec.europa.eu/products/glc2000/glc2000.php)
- Protected Planet (http://www.protectedplanet.net)
- World Wildlife Data and Tools (http://www.worldwildlife.org/science/data/item1872.html)
Population Genetics, Phylogenetics & Bioinformatics Software
- AFLPdat - A Collection of R Functions Which Facilitates the Handling of Dominant Genotypic Data (http://www.nhm .uio.no/english/research/ncb/aflpdat/) | The R Project for Statistical Computing
- ALLELES IN SPACE (AIS) v1.0 - A Computer Program for the Joint Analysis of Inter-Individual Spatial and Genetic Information (http://www.marksgeneticsoftware.net)
- Arlequin v3.5.1.3 - An Integrated Software for Population Genetics Data Analysis (http://cmpg.unibe.ch/software /arlequin35/)
- ARWEN - A Program for Detecting tRNA genes in Metazoan Mitochondrial Nucleotide Sequences (http://130.235. 46.10/ARWEN/) | (AppNote) **
- BAPS v4.14 - A Software for Bayesian Analysis of Genetic Population Structure (http://www.helsinki.fi/bsg/software /BAPS/)
- Barrier v2.2 - A Software for Computing Geographic Barriers from a Distance Matrix (http://www.mnhn.fr/mnhn /ecoanthropologie/software/barrier.html)
- BayesAss v3 - Bayesian Inference of Recent Migration Using Multilocus Genotypes (http://www.rannala.org/?page_id=245)
- BEAST (Bayesian Evolutionary Analysis Sampling Trees) v1.7.5 - A Cross-Platform Program for Bayesian MCMC Analysis of Molecular Sequences (https://code.google.com/p/beast-mcmc/)
- BEST v2.3.1 - A Phylogenetic Program Which Estimates the Joint Posterior Distribution of Gene Trees and Species Tree Using Multilocus Molecular Data That Accounts for Deep Coalescence but Not for Other Issues Such as Horizontal Transfer or Gene Duplication (http://www.stat.osu.edu/~dkp/BEST/)
- BioEdit v7.2.0 - A Mouse-Driven, Easy-To-Use Sequence Alignment Editor and Sequence Analysis Program (http://www.mbio.ncsu.edu/bioedit/page2.html)
- BioHPC Web Computing Interface - Cornell BRC Bioinformatics Facility (http://cbsuapps.tc.cornell.edu/index.aspx)
- BLAST Ring Image Generator (BRIG) - A Free Cross-Platform (Windows/Mac/Unix) Application That Can Display Circular Comparisons between a Large Number of Genomes, with a Focus on Handling Genome Assembly Data (http://brig.sourceforge.net/) (AppNote)
- BOTTLENECK v1.2.02 - A Program for Detecting Recent Effective Population Size Reductions from Allele Data Frequencies (http://www1.montpellier.inra.fr/URLB/bottleneck/bottleneck.html)
- BottleSim v2.6 - A Computer Simulation Program for Simulating the Process of Population Bottlenecks (http://chkuo.name/software/BottleSim.html)
- BP&P (Bayesian Phylogenetics and Phylogeography) v2.1 - A Computer Program which Implements the Bayesian Methods of Yang (2002), Rannala & Yang (2003), Burgess & Yang (2008), and Yang & Rannala (2010), for Estimating Population Sizes (theta’s), Species Divergence Times (tau’s), and for Delimiting Species Using Multi-Locus Sequence Data from Several Closely Related Species (http://www.rannala.org/?page_id=235)
- CAP3 - A Sequence Assembly Program (http://seq.cs.iastate.edu/cap3.html) (Online Version Here)
- Cervus v3.0 - A Computer Program for Assignment of Parents to Their Offspring Using Genetic Markers (http:// www.fieldgenetics.com/pages/aboutCervus_Overview.jsp)
- CGView Server - A Web-Based Comparative Genomics Tool for Circular Genomes (Plasmid, Bacterial, Mitochondrial, and Chloroplast) that Allows Sequence Feature Information to Be Visualized in the Context of Sequence Analysis Results (http://stothard.afns.ualberta.ca/cgview_server/) | (AppNote) **
- CLC Genomics Workbench v7.5 - A Cross-Platform Desktop Application with a Graphical User-Interface for Analyzing and Visualizing Next Generation Sequencing Data (http://www.clcbio.com/products/clc-genomics-workbench/)
- COLONY v2 - A Fortran Program Which Implements a Maximum Likelihood Method to Assign Sibship and Parentage Jointly, Using Individual Multilocus Genotypes at a Number of Codominant or Dominant Marker Loci (http://www.zsl.org/science/software/colony)
- CREATE v1.37 - A Software for the Creation of New and Conversion of Existing Data Input Files for 64 Genetic Data Analysis Software Programs (https://bcrc.bio.umass.edu/pedigreesoftware/node/2)
- DAMBE - Data Analysis and Molecular Biology and Evolution (http://dambe.bio.uottawa.ca/dambe.asp)
- DnaSP (DNA Sequence Polymorphism) v5.10.1 - A Software Package for the Analysis of Nucleotide Polymorphism from Aligned DNA Sequence Data by the Coalescent and Other Methods (http://www.ub.edu/dnasp/)
- DOGMA - A Web-Based Tool for Annotating Plant Chloroplast and Animal Mitochondrial Genomes (http://dogma .ccbb.utexas.edu/) | (AppNote / PDF) **
- FastPCR v6.5 - An Integrated Tools Environment That Provides Comprehensive and Professional Facilities for Designing Any Kind of PCR Primers (http://primerdigital.com/fastpcr.html)
- Formatomatic v0.8.1 - A Population Genetic File Creator and Converter (http://taylor0.biology.ucla.edu/~manoukis /Pub_programs/Formatomatic/)
- FSTAT v2.9.3.2 - A Computer Package for Estimating and Testing Gene Diversities and Differentiation Statistics from Codominant Genetic Markers; Computing Both Nei and Weir & Cockerham Families of Estimators of Gene Diversities and F-Statistics, and Testing Them Using Randomisation Methods (http://www2.unil.ch/popgen/softwares/fstat.htm)
- GenAlEx v6.5 - Genetic Analyses in Excel (http://biology.anu.edu.au/GenAlEx/Welcome.html) | Tutorials
- GenClone v2.0 - A Computer Program to Analyze Genotypic Data, Test for Clonality and Describe Spatial Clonal Organization (http://www.ccmar.ualg.pt/maree/software.php?soft=genclon)
- Geneious R8 - A DNA, RNA and Protein Sequence Alignment, Assembly and Analysis Software Platform, Integrating Bioinformatic and Molecular Biology Tools into a Simple Interface (http://www.geneious.com)
- GENEPOP v4.2.1 - A Powerful Population Genetics Software Package (http://kimura.univ-montp2.fr/~rousset /Genepop.htm)
- Genetic Landscapes GIS Toolbox v10 - Tools to Create Genetic Divergence and Diversity Landscapes in ArcGIS (http://www.werc.usgs.gov/productdetails.aspx?id=4017)
- GenGIS v2.1.0 - A Bioinformatic Application Which Allows Users to Combine Digital Map Data with Information about Biological Sequences Collected from the Environment (http://kiwi.cs.dal.ca/GenGIS/Main_Page)
- GeoDis v2.6 - A Tool to Perform the Nested Clade Phylogeographic Analysis (NCPA) (http://darwin.uvigo.es/software /geodis.html)
- IdeoKar v1.1 - A Free Karyotyping Software for Analyzing Karyotype and Generating Ideogram from Metaphase Chromosome Preparations (http://agri.uok.ac.ir/ideokar/index.html)
- ImageJ - A Public Domain Java Image Processing Program That Can Display, Edit, Analyze, Process, Save and Print 8-/-16/-32-Bit Images (http://rsbweb.nih.gov/ij/docs/intro.html)
- JML v1.02 - Testing Hybridization from Species Trees (http://www.plantevolution.org/en/jml.html)
- KINGROUP v2 - A Program for Pedigree Relationship Reconstruction and Kin Group Assignments Using Genetic Markers (https://code.google.com/p/kingroup/)
- MacClade v4 - A Computer Program for Phylogenetic Analysis, with Its Analytical Strength in Studies of Character Evolution (http://macclade.org/index.html)
- MAFFT v7 - A Multiple Sequence Alignment Program Which Offers a Range of Multiple Alignment Methods, i.e., L-INS-i (Accurate; for Alignment of <∼200 Sequences) and FFT-NS-2 (Fast; for Alignment of <∼10,000 Sequences) (http:// mafft.cbrc.jp/alignment/software/)
- MateSoft v1.0 - A Program for Deducing Parental Genotypes and Estimating Mating System Statistics in Haplodiploid Species Based on Co-Dominant Genetic Marker Data (http://www.bi.ku.dk/staff/jspedersen/matesoft/)
- Mauve v2.0 - A Computer Program for Efficiently Constructing Multiple Genome Alignments in the Presence of Large-Scale Evolutionary Events Such as Rearrangement and Inversion (http://gel.ahabs.wisc.edu/mauve/)
- MEGA v6.0 - An Integrated Tool for Molecular Evolutionary Genetics Analysis (http://www.megasoftware.net)
- MESQUITE v2.75 - A Modular System for Evolutionary Analysis, Designed to Help Biologists Analyze Comparative Data about Organisms (http://mesquiteproject.org/mesquite/mesquite.html)
- Micro-Checker v2.2.3 - A Software That Checks for Microsatellite Null Alleles and Scoring Errors, Provides Null Allele Estimates, and Adjusts Allele And Genotypes Frequencies (http://www.microchecker.hull.ac.uk)
- Microsatellite Analyzer (MSA) v4.05 - A Platform-Independent Analysis Tool for Large Microsatellite Data Sets (http:// i122server.vu-wien.ac.at/MSA/MSA_download.html)
- MIRA - Whole Genome Shotgun and EST Sequence Assembler for Sanger, 454 and Solexa / Illumina (http://sourceforge.net/projects/mira-assembler/) (User's Guide: Webpage | PDF) **
- MITObim - An Efficient Tool for Assembling Novel Mitochondrial Genomes of Non-Model Organisms Directly from Total Genomic DNA Derived NGS Reads (https://github.com/chrishah/MITObim) **
- MITOS - A Free Web Server for the Annotation of Metazoan Mitochondrial Genomes (http://mitos.bioinf.uni-leipzig.de/index.py) (User's Guide) **
- MIGRATE-N v3.5.1 - Estimation of Population Sizes and Gene Flow Using the Coalescent (http://popgen.sc.fsu.edu /Migrate/Migrate-n.html)
- ML-Relate - A Computer Program Which Calculates Maximum Likelihood Estimates of Relatedness and Relationship Based on Microsatellite Marker Data (http://www.montana.edu/kalinowski/Software/MLRelate.htm)
- MrBayes v3.2.5 - A Program for Bayesian Inference and Model Choice across A Wide Range of Phylogenetic and Evolutionary Model (http://mrbayes.sourceforge.net) | Graphic User Interface (GUI): siMBa (AppNote)
- MrEnt v2.5 - An Editor for Publication-Quality Phylogenetic Tree Illustrations (http://www.mrent.org) | (AppNote)
- MSATCOMMANDER v1.0.8 - A Computer Program for Detection of Microsatellite Repeat Arrays and Automated, Locus-Specific Primer Design (https://code.google.com/p/msatcommander/)
- mtviz - A Tool for Drawing Draw Publication Ready Pictures of Mitochondrial Genomes (http://pacosy.informatik.uni-leipzig.de/mtviz) **
- Multiplex Manager v1.2 - A Cross-Platform Tool That Designs and Optimizes Multiplex PCRs (http://www. multiplexmanager.com)
- Network v4.611 - A Phylogenetic Software Which Generates Evolutionary Trees and Networks from Genetic, Linguistic and Other Data, and Can Then Provide Age Estimates for Any Ancestor in the Tree (http://www.fluxus-engineering.com /sharenet.htm)
- NGS QC Toolkit v2.3 - A Toolkit for the Quality Control (QC) of Next Generation Sequencing (NGS) Data (http:// 59.163.192.90:8080/ngsqctoolkit/)
- NucType v1.5 - A Tool for Measuring Distances/Size of Chromosomes, Grouping the Chromosomes and Analyzing the Karyotype (i.e. Karyotype Asymmetry Indices) (http://mnh.scu.edu.cn/soft/blog/nuctype/)
- OGDRAW (OrganellarGenomeDRAW) - A Suite of Tools for Generating Physical Maps of Plastid (Chloroplast) and Mitochondrial Genomes and Visualizing Expression Data Sets (http://ogdraw.mpimp-golm.mpg.de/) | (AppNote) **
- PAML (Phylogenetic Analysis by Maximum Likelihood) v4.7 - A Package of Programs for Phylogenetic Analyses of DNA or Protein Sequences Using Maximum Likelihood (http://abacus.gene.ucl.ac.uk/software/paml.html) | Graphical User Interface (GUI): PAML-X (Windows, Linux & Mac)
- PAUP* 4.0 - A Tool for Inferring and Interpreting Phylogenetic Trees (http://paup.csit.fsu.edu) | Graphical User Interface (GUI): PaupGUI and WINIPAUP v1.0.
- Peak Scanner™ Software v1.0 - A freeware for DNA fragment analysis, which separates a mixture of DNA fragments according to their sizes, provides a profile of the separation, and precisely calculates the sizes of the fragments (http://www.lifetechnologies.com/order/catalog/product/4381867)
- PHYLIP v3.69 - A Free Package of Programs for Inferring Phylogenies (http://evolution.genetics.washington.edu /phylip.html)
- POPGENE v1.32 - A User-Friendly Freeware for Population Genetic Analysis (http://www.ualberta.ca/~fyeh /popgene.html)
- POPTREE2 - Software for Construction of Population Trees from Allele Frequency Data and Computing Other Population Statistics with Windows-Interface (http://www.med.kagawa-u.ac.jp/~genomelb/takezaki/poptree2/index.html)
- PowerMarker v3.25 - A Comprehensive Set of Statistical Methods for Genetic Marker Data Analysis, Designed Especially for SSR/SNP Data Analysis (http://statgen.ncsu.edu/powermarker/)
- RASP v2.0 - A Tool for Inferring Ancestral State Using Bayesian, Parsimony or SDIVA Method (http://mnh.scu.edu.cn /soft/blog/RASP/index.html)
- RELATEDNESS v5.0.8 - A Computer Program for Calculating Average Genetic Relatedness and Its Confidence Limits between Pairs or Groups of Individuals Identified by Demographic Variables (http://strassmannandquellerlab .wordpress .com/home/teaching/)
- SAMOVA v1.0 - A Program to Define the Genetic Structure of Populations By a Simulated Annealing Approach (http://cmpg.unibe.ch/software/samova/)
- SciRoKo v3.4 - A Computer Program Which Allows For Whole Genome Microsatellite Search and Investigation (http://kofler.or.at/bioinformatics/SciRoKo/)
- S-DIVA v1.9 - A Program Which Complements DIVA, Implements the Methods of Nylander et al. (2008) and Harris and Xiang (2009), and Determines Statistical Support for Ancestral Range Reconstructions Using A Novel Method (http://mnh.scu.edu.cn/soft/blog/SDIVA/index.html)
- SIMMAP v1.5 - A Post-Tree Analysis GUI Software Package for Stochastically Mapping Mutations on Phylogenies (http://www.simmap.com/index.html)
- SKEW CALCULATOR 2003 - A Computer Program for Calculating Various Estimates of Reproductive Skew (https://www.eeb.ucla.edu/Faculty/Nonacs/index.html) | User’s Guide (PDF)
- SMOGD v1.2.5 - Software for the Measurement of Genetic Diversity (http://www.ngcrawford.com/django/jost/)
- SOAPdenovo2 - A Novel Short-Read Assembly Method that Can Build a De Novo Draft Assembly for the Human-Sized Genomes (http://soap.genomics.org.cn/soapdenovo.html)
- SP-Designer: A User-Friendly Program for Designing Species-Specific Primer Pairs from DNA Sequence Alignments (http://www2.sophia.inra.fr/urih/sophia_mart/sp_designer/info_sp_designer.php)
- SPADE (Species Prediction And Diversity Estimation) - A Free Software for Estimating Various Biodiversity Indices Based on Different Types of Sample Data from One or Multiple Communities (http://tomato.biol.trinity.edu/programs /index.php/SPADE) | User’s Guide (PDF)
- SPAGeDi (Spatial Pattern Analysis of Genetic Diversity) v1.4 - A Computer Package for Characterizing the Spatial Genetic Structure of Mapped Individuals and/or Mapped Populations Using Genotype Data of Any Ploidy Level (http://ebe.ulb.ac.be/ebe/SPAGeDi.html)
- Species Delimitation Plugin (for Geneious) - An Exploratory Tool that Allows Users to Assess Putative Species in Phylogenetic Trees (http://www.fos.auckland.ac.nz/~howardross/Software/SpDelim/)
- SplitsTree4 - A Leading Application for Computing Unrooted Phylogenetic Networks from Molecular Sequence Data (http://www.splitstree.org)
- SPREAD v1.0.6 - A User-Friendly Application to Analyze and Visualize Phylogeographic Reconstructions Resulting from Bayesian Inference of Spatio-Temporal Diffusion (http://www.kuleuven.be/aidslab/phylogeography/SPREAD.html)
- Structure v2.3.4 - A Software Package for Using Codominant or Dominant Maker Data to Investigate Population Structure (http://pritchardlab.stanford.edu/structure.html)
- TCS v1.21 - a Java Computer Program to Estimate Gene Genealogies Including Multifurcations and/or Reticulations (i.e. Networks) (http://darwin.uvigo.es/software/tcs.html)
- TESS v2.3 - Bayesian Clustering Using Tessellations and Markov Models for Spatial Population Genetics (http://membres-timc.imag.fr/Olivier.Francois/tess.html)
- TETRA - An Improved Program for Population Genetic Analysis of Allotetraploid Microsatellite Data (http://ecology .bnu.edu.cn/zhangdy/TETRA/TETRA.htm)
- TFPGA - A Computer Program for the Analysis of Allozyme and Molecular Population Genetic DATA (http://www .marksgeneticsoftware.net/_vti_bin/shtml.exe/tfpga.htm)
- The Mfold Web Server - The Server Offers a Number of Closely Related Software Applications for Predicting the Secondary Structure of Single Stranded Nucleic Acids. (http://mfold.rna.albany.edu/?q=mfold) (AppNote / PDF)
- The ORF Finder (Open Reading Frame Finder) - A Graphical Analysis Tool Which Finds All Open Reading Frames of a Selectable Minimum Size in a User's Sequence or in a Sequence Already in the Database (http://www.ncbi.nlm.nih.gov /gorf/gorf.html) **
- TOPALi v2.5 - A Rich Graphical Interface for Evolutionary Analyses of Multiple Alignments on HPC Clusters and Multi-Core Desktops (http://www.topali.org)
- TreeGraph v2 - A Graphical Editor for Phylogenetic Trees Which Allows You to Apply Lots of Graphical Formats to the Elements of Your Tree (http://treegraph.bioinfweb.info)
- TreeView v1.6.6 - A Software for Viewing the Contents of a NEXUS, PHYLIP, Hennig86, Clustal, or Other Format Tree File (http://taxonomy.zoology.gla.ac.uk/rod/treeview.html)
- tRNAscan-SE v1.21 - A Web Server for Detecting Transfer RNA (tRNA) Genes in Genomic Sequences (http://lowelab .ucsc.edu/tRNAscan-SE/) | (AppNote-1 / AppNote-2) **
- VISTA - A Comprehensive Suite of Programs and Databases for Comparative Analysis of Genomic Sequences (http://genome.lbl.gov/vista/index.shtml) | (AppNote) **
- WebMGA - A Web Server for Fast Metagenomic Analysis, Including 20+ Commonly Used tools for Analyses Such as ORF Calling, Sequence Clustering, Quality Control of Raw Reads, Removal of Sequencing Artifacts and Contaminations, Taxonomic Analysis, Functional Annotation etc. (http://weizhong-lab.ucsd.edu/metagenomic-analysis/) **
Online Tutorials
- An Introduction to R: Software for Statistical Modelling and Computing, Course Notes (http://www.csiro.au /resources /Rcoursenotes)
- Analyzing High Throughput Sequencing Data (http://www.personal.psu.edu/iua1/courses/2011-BMMB-597D.html)
- Bayesian Methods (http://voteview.com/Bayes_ucsd.htm)
- Guide to Species Distribution Modeling (http://biodiversityinformatics.amnh.org/index.php?section=sdm_guide)
- Phylogenetic Comparative Methods (http://systematics.mortonarb.org/lab/teaching/pcm35300.readings.html)
- Phylogenetics (http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Phylogenetics:_Syllabus)
- Principles and Practice of Phylogenetic Systematics (http://www.faculty.biol.ttu.edu/Strauss/Phylogenetics/Lecture Notes.htm)
- Principles and Methods of Systematic Biology (http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Principles _and_Methods_of_Systematic_Biology_%28EEB_5347%29)
- Quantitative Methods in Ecology and Evolution (https://www.zoology.ubc.ca/~bio501/R/)
- Statistical Phylogeography (http://darwin.eeb.uconn.edu/wiki/index.php/Statistical_phylogeography)
Last updated: 07-May-2015
Copyright @ Zengqiang Qian 2012-2015. All Rights Reserved.