SlideShare une entreprise Scribd logo

Bio::Phylo - phyloinformatic analysis using perl

•
•
Rutger Vos
Rutger Vos

Bio::Phylo is a BioPerl-compatible phyloinformatics toolkit that implements EvoIO concepts and technologies. It can be used for phyloinformatics workflows and data transformation, PhyloWS servers and clients, visualization, and analysis and simulation of tree shapes. Future directions include tighter integration with BioPerl, extending PhyloWS functionality, and SWIG backends for other tools like HyPhy, NCL, and Beagle.

Technologie
1  sur  6
Télécharger pour lire hors ligne
Bio::Phylo  –        Phyloinformatic  analysis  using  Perl     Rutger  Vos  
Introduction   Bio::Phylo  is  a  BioPerl-­‐compa1ble  phyloinforma1c   toolkit  that  implements  EvoIO  concepts  and   technologies  
Use  Cases     PhyloInforma1c  workflows,   data  transforma1on     PhyloWS  servers  and   clients     Visualiza:on     Analysis  and  simula1on  of   tree  shapes  
Future  Directions     Tighter  integra1on  in  BioPerl     Extending  PhyloWS  func1onality     SWIG  backends,  e.g.  HyPhy,  NCL,  Beagle  
Learn  More     hKp://search.cpan.org/dist/Bio-­‐Phylo       Or  google  Bio::Phylo     Or  @rvosa     Computa1onal  Phyloinforma1cs:  A  BGI-­‐Shenzhen  and  NESCent   Course  (August  5-­‐17  2010)  
Acknowledgements     Jason  Caravas     Klaas  Hartmann     Mark  Jensen     Chase  Miller     Aki  Mimoto  

Recommandé

Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...
Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...
Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...Jonathan Eisen
 
Surfacing the deep data of taxonomy
Surfacing the deep data of taxonomySurfacing the deep data of taxonomy
Surfacing the deep data of taxonomyRoderic Page
 
Bio4j
Bio4jBio4j
Bio4jPablo Pareja Tobes
 
Intro to data visualization
Intro to data visualizationIntro to data visualization
Intro to data visualizationJan Aerts
 
20120622 fridayadelboden
20120622 fridayadelboden20120622 fridayadelboden
20120622 fridayadelbodenYannick Wurm
 
OBF Address at BOSC 2012
OBF Address at BOSC 2012OBF Address at BOSC 2012
OBF Address at BOSC 2012Hilmar Lapp
 
Chamberlain PhD Thesis
Chamberlain PhD ThesisChamberlain PhD Thesis
Chamberlain PhD Thesisschamber
 
J Goecks - The Galaxy Visual Analysis Framework
J Goecks - The Galaxy Visual Analysis FrameworkJ Goecks - The Galaxy Visual Analysis Framework
J Goecks - The Galaxy Visual Analysis FrameworkJan Aerts
 

Recommandé

Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...
Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...
Jonathan Eisen: Phylogenetic approaches to the analysis of genomes and metage...Jonathan Eisen
 
Surfacing the deep data of taxonomy
Surfacing the deep data of taxonomySurfacing the deep data of taxonomy
Surfacing the deep data of taxonomyRoderic Page
 
Bio4j
Bio4jBio4j
Bio4jPablo Pareja Tobes
 
Intro to data visualization
Intro to data visualizationIntro to data visualization
Intro to data visualizationJan Aerts
 
20120622 fridayadelboden
20120622 fridayadelboden20120622 fridayadelboden
20120622 fridayadelbodenYannick Wurm
 
OBF Address at BOSC 2012
OBF Address at BOSC 2012OBF Address at BOSC 2012
OBF Address at BOSC 2012Hilmar Lapp
 
Chamberlain PhD Thesis
Chamberlain PhD ThesisChamberlain PhD Thesis
Chamberlain PhD Thesisschamber
 
J Goecks - The Galaxy Visual Analysis Framework
J Goecks - The Galaxy Visual Analysis FrameworkJ Goecks - The Galaxy Visual Analysis Framework
J Goecks - The Galaxy Visual Analysis FrameworkJan Aerts
 
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...Jonathan Eisen
 
VIZBI 2014 - Visualizing Genomic Variation
VIZBI 2014 - Visualizing Genomic VariationVIZBI 2014 - Visualizing Genomic Variation
VIZBI 2014 - Visualizing Genomic VariationJan Aerts
 
Tetrahymena genome project 2003 presentation by Jonathan Eisen
Tetrahymena genome project 2003 presentation by Jonathan EisenTetrahymena genome project 2003 presentation by Jonathan Eisen
Tetrahymena genome project 2003 presentation by Jonathan EisenJonathan Eisen
 
Procter Vamsas Bosc2009
Procter Vamsas Bosc2009Procter Vamsas Bosc2009
Procter Vamsas Bosc2009bosc
 
The role of cost in yeast gene expression
The role of cost in yeast gene expressionThe role of cost in yeast gene expression
The role of cost in yeast gene expressionMichael Barton
 
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...Jonathan Eisen
 
The neurobiological nature of free will
The neurobiological nature of free willThe neurobiological nature of free will
The neurobiological nature of free willBjörn Brembs
 
ORCID Principles
ORCID PrinciplesORCID Principles
ORCID PrinciplesMartin Fenner
 
E Talevich - Biopython project-update
E Talevich - Biopython project-updateE Talevich - Biopython project-update
E Talevich - Biopython project-updateJan Aerts
 
Jonathan Eisen @phylogenomics talk for #LAMG12
Jonathan Eisen @phylogenomics talk for #LAMG12Jonathan Eisen @phylogenomics talk for #LAMG12
Jonathan Eisen @phylogenomics talk for #LAMG12Jonathan Eisen
 
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...Jean-Claude Bradley
 
Intel Theater Presentation - SC11
Intel Theater Presentation - SC11Intel Theater Presentation - SC11
Intel Theater Presentation - SC11Deepak Singh
 
Humanizing bioinformatics
Humanizing bioinformaticsHumanizing bioinformatics
Humanizing bioinformaticsJan Aerts
 
Evolution of gene family size change in fungi
Evolution of gene family size change in fungiEvolution of gene family size change in fungi
Evolution of gene family size change in fungiJason Stajich
 
The Sam Adams talk
The Sam Adams talkThe Sam Adams talk
The Sam Adams talkRoderic Page
 
ESA 2012 talk
ESA 2012 talkESA 2012 talk
ESA 2012 talkCarl Boettiger
 
Using Social Media in Research
Using Social Media in ResearchUsing Social Media in Research
Using Social Media in ResearchHolly Bik
 
Fungal ITS meeting presentation
Fungal ITS meeting presentationFungal ITS meeting presentation
Fungal ITS meeting presentationHolly Bik
 
Perl for Phyloinformatics
Perl for PhyloinformaticsPerl for Phyloinformatics
Perl for PhyloinformaticsRutger Vos
 
Thoughts on the recent announcements by Oxford Nanopore Technologies
Thoughts on the recent announcements by Oxford Nanopore TechnologiesThoughts on the recent announcements by Oxford Nanopore Technologies
Thoughts on the recent announcements by Oxford Nanopore TechnologiesKeith Bradnam
 
BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)Mark Jensen
 
BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)Mark Jensen
 

Contenu connexe

En vedette

Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...Jonathan Eisen
 
VIZBI 2014 - Visualizing Genomic Variation
VIZBI 2014 - Visualizing Genomic VariationVIZBI 2014 - Visualizing Genomic Variation
VIZBI 2014 - Visualizing Genomic VariationJan Aerts
 
Tetrahymena genome project 2003 presentation by Jonathan Eisen
Tetrahymena genome project 2003 presentation by Jonathan EisenTetrahymena genome project 2003 presentation by Jonathan Eisen
Tetrahymena genome project 2003 presentation by Jonathan EisenJonathan Eisen
 
Procter Vamsas Bosc2009
Procter Vamsas Bosc2009Procter Vamsas Bosc2009
Procter Vamsas Bosc2009bosc
 
The role of cost in yeast gene expression
The role of cost in yeast gene expressionThe role of cost in yeast gene expression
The role of cost in yeast gene expressionMichael Barton
 
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...Jonathan Eisen
 
The neurobiological nature of free will
The neurobiological nature of free willThe neurobiological nature of free will
The neurobiological nature of free willBjörn Brembs
 
E Talevich - Biopython project-update
E Talevich - Biopython project-updateE Talevich - Biopython project-update
E Talevich - Biopython project-updateJan Aerts
 
Jonathan Eisen @phylogenomics talk for #LAMG12
Jonathan Eisen @phylogenomics talk for #LAMG12Jonathan Eisen @phylogenomics talk for #LAMG12
Jonathan Eisen @phylogenomics talk for #LAMG12Jonathan Eisen
 
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...Jean-Claude Bradley
 
Intel Theater Presentation - SC11
Intel Theater Presentation - SC11Intel Theater Presentation - SC11
Intel Theater Presentation - SC11Deepak Singh
 
Humanizing bioinformatics
Humanizing bioinformaticsHumanizing bioinformatics
Humanizing bioinformaticsJan Aerts
 
Evolution of gene family size change in fungi
Evolution of gene family size change in fungiEvolution of gene family size change in fungi
Evolution of gene family size change in fungiJason Stajich
 
The Sam Adams talk
The Sam Adams talkThe Sam Adams talk
The Sam Adams talkRoderic Page
 
Using Social Media in Research
Using Social Media in ResearchUsing Social Media in Research
Using Social Media in ResearchHolly Bik
 
Fungal ITS meeting presentation
Fungal ITS meeting presentationFungal ITS meeting presentation
Fungal ITS meeting presentationHolly Bik
 
Perl for Phyloinformatics
Perl for PhyloinformaticsPerl for Phyloinformatics
Perl for PhyloinformaticsRutger Vos
 
Thoughts on the recent announcements by Oxford Nanopore Technologies
Thoughts on the recent announcements by Oxford Nanopore TechnologiesThoughts on the recent announcements by Oxford Nanopore Technologies
Thoughts on the recent announcements by Oxford Nanopore TechnologiesKeith Bradnam
 

En vedette (20)

Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
Jonathan Eisen talk for #SCS2012 at #ISMB "Networks in genomics and bioinfor...
 
VIZBI 2014 - Visualizing Genomic Variation
VIZBI 2014 - Visualizing Genomic VariationVIZBI 2014 - Visualizing Genomic Variation
VIZBI 2014 - Visualizing Genomic Variation
 
Tetrahymena genome project 2003 presentation by Jonathan Eisen
Tetrahymena genome project 2003 presentation by Jonathan EisenTetrahymena genome project 2003 presentation by Jonathan Eisen
Tetrahymena genome project 2003 presentation by Jonathan Eisen
 
Procter Vamsas Bosc2009
Procter Vamsas Bosc2009Procter Vamsas Bosc2009
Procter Vamsas Bosc2009
 
The role of cost in yeast gene expression
The role of cost in yeast gene expressionThe role of cost in yeast gene expression
The role of cost in yeast gene expression
 
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
Evolution of the RecA Protein: from Systematics to Structure 1995 talk for CA...
 
The neurobiological nature of free will
The neurobiological nature of free willThe neurobiological nature of free will
The neurobiological nature of free will
 
ORCID Principles
ORCID PrinciplesORCID Principles
ORCID Principles
 
E Talevich - Biopython project-update
E Talevich - Biopython project-updateE Talevich - Biopython project-update
E Talevich - Biopython project-update
 
Jonathan Eisen @phylogenomics talk for #LAMG12
Jonathan Eisen @phylogenomics talk for #LAMG12Jonathan Eisen @phylogenomics talk for #LAMG12
Jonathan Eisen @phylogenomics talk for #LAMG12
 
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
A brief description of the Chemical Rediscovery Survey and Open Chemistry in ...
 
Intel Theater Presentation - SC11
Intel Theater Presentation - SC11Intel Theater Presentation - SC11
Intel Theater Presentation - SC11
 
Humanizing bioinformatics
Humanizing bioinformaticsHumanizing bioinformatics
Humanizing bioinformatics
 
Evolution of gene family size change in fungi
Evolution of gene family size change in fungiEvolution of gene family size change in fungi
Evolution of gene family size change in fungi
 
The Sam Adams talk
The Sam Adams talkThe Sam Adams talk
The Sam Adams talk
 
ESA 2012 talk
ESA 2012 talkESA 2012 talk
ESA 2012 talk
 
Using Social Media in Research
Using Social Media in ResearchUsing Social Media in Research
Using Social Media in Research
 
Fungal ITS meeting presentation
Fungal ITS meeting presentationFungal ITS meeting presentation
Fungal ITS meeting presentation
 
Perl for Phyloinformatics
Perl for PhyloinformaticsPerl for Phyloinformatics
Perl for Phyloinformatics
 
Thoughts on the recent announcements by Oxford Nanopore Technologies
Thoughts on the recent announcements by Oxford Nanopore TechnologiesThoughts on the recent announcements by Oxford Nanopore Technologies
Thoughts on the recent announcements by Oxford Nanopore Technologies
 

Similaire à Bio::Phylo - phyloinformatic analysis using perl

BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)Mark Jensen
 
BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)Mark Jensen
 
Apollo and i5K: Collaborative Curation and Interactive Analysis of Genomes
Apollo and i5K: Collaborative Curation and Interactive Analysis of GenomesApollo and i5K: Collaborative Curation and Interactive Analysis of Genomes
Apollo and i5K: Collaborative Curation and Interactive Analysis of GenomesMonica Munoz-Torres
 
Advanced Bioinformatics for Genomics and BioData Driven Research
Advanced Bioinformatics for Genomics and BioData Driven ResearchAdvanced Bioinformatics for Genomics and BioData Driven Research
Advanced Bioinformatics for Genomics and BioData Driven ResearchEuropean Bioinformatics Institute
 
PhoenixBio 2020 Stanford Workshop on PhyloGenes
PhoenixBio 2020 Stanford Workshop on PhyloGenesPhoenixBio 2020 Stanford Workshop on PhyloGenes
PhoenixBio 2020 Stanford Workshop on PhyloGenesPhoenix Bioinformatics
 
InterPro and InterProScan 5.0
InterPro and InterProScan 5.0InterPro and InterProScan 5.0
InterPro and InterProScan 5.0EBI
 
Towards a Simple, Standards-Compliant, and Generic Phylogenetic Database
Towards a Simple, Standards-Compliant, and Generic Phylogenetic DatabaseTowards a Simple, Standards-Compliant, and Generic Phylogenetic Database
Towards a Simple, Standards-Compliant, and Generic Phylogenetic DatabaseHilmar Lapp
 
Introduction to Ontologies for Environmental Biology
Introduction to Ontologies for Environmental BiologyIntroduction to Ontologies for Environmental Biology
Introduction to Ontologies for Environmental BiologyBarry Smith
 
Wageningen phenotype meeting
Wageningen phenotype meetingWageningen phenotype meeting
Wageningen phenotype meetingthehyve
 
FAIR Agronomy, where are we? The KnetMiner Use Case
FAIR Agronomy, where are we? The KnetMiner Use CaseFAIR Agronomy, where are we? The KnetMiner Use Case
FAIR Agronomy, where are we? The KnetMiner Use CaseRothamsted Research, UK
 
Supporting researchers in the molecular life sciences Jeff Christiansen
Supporting researchers in the molecular life sciences Jeff Christiansen Supporting researchers in the molecular life sciences Jeff Christiansen
Supporting researchers in the molecular life sciences Jeff Christiansen ARDC
 
Connecting life sciences data at the European Bioinformatics Institute
Connecting life sciences data at the European Bioinformatics InstituteConnecting life sciences data at the European Bioinformatics Institute
Connecting life sciences data at the European Bioinformatics InstituteConnected Data World
 
Web Apollo at Genome Informatics 2014
Web Apollo at Genome Informatics 2014Web Apollo at Genome Informatics 2014
Web Apollo at Genome Informatics 2014Monica Munoz-Torres
 
Deep learning for extracting protein-protein interactions from biomedical lit...
Deep learning for extracting protein-protein interactions from biomedical lit...Deep learning for extracting protein-protein interactions from biomedical lit...
Deep learning for extracting protein-protein interactions from biomedical lit...Yifan Peng
 

Similaire à Bio::Phylo - phyloinformatic analysis using perl (20)

BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)
 
BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)BioPerl (Poster T02, ISMB 2010)
BioPerl (Poster T02, ISMB 2010)
 
bioinformatics enabling knowledge generation from agricultural omics data
bioinformatics enabling knowledge generation from agricultural omics databioinformatics enabling knowledge generation from agricultural omics data
bioinformatics enabling knowledge generation from agricultural omics data
 
Python
PythonPython
Python
 
Apollo and i5K: Collaborative Curation and Interactive Analysis of Genomes
Apollo and i5K: Collaborative Curation and Interactive Analysis of GenomesApollo and i5K: Collaborative Curation and Interactive Analysis of Genomes
Apollo and i5K: Collaborative Curation and Interactive Analysis of Genomes
 
Advanced Bioinformatics for Genomics and BioData Driven Research
Advanced Bioinformatics for Genomics and BioData Driven ResearchAdvanced Bioinformatics for Genomics and BioData Driven Research
Advanced Bioinformatics for Genomics and BioData Driven Research
 
Introduction to Proteogenomics
Introduction to Proteogenomics Introduction to Proteogenomics
Introduction to Proteogenomics
 
PhoenixBio 2020 Stanford Workshop on PhyloGenes
PhoenixBio 2020 Stanford Workshop on PhyloGenesPhoenixBio 2020 Stanford Workshop on PhyloGenes
PhoenixBio 2020 Stanford Workshop on PhyloGenes
 
InterPro and InterProScan 5.0
InterPro and InterProScan 5.0InterPro and InterProScan 5.0
InterPro and InterProScan 5.0
 
Towards a Simple, Standards-Compliant, and Generic Phylogenetic Database
Towards a Simple, Standards-Compliant, and Generic Phylogenetic DatabaseTowards a Simple, Standards-Compliant, and Generic Phylogenetic Database
Towards a Simple, Standards-Compliant, and Generic Phylogenetic Database
 
Introduction to Ontologies for Environmental Biology
Introduction to Ontologies for Environmental BiologyIntroduction to Ontologies for Environmental Biology
Introduction to Ontologies for Environmental Biology
 
Wageningen phenotype meeting
Wageningen phenotype meetingWageningen phenotype meeting
Wageningen phenotype meeting
 
FAIR Agronomy, where are we? The KnetMiner Use Case
FAIR Agronomy, where are we? The KnetMiner Use CaseFAIR Agronomy, where are we? The KnetMiner Use Case
FAIR Agronomy, where are we? The KnetMiner Use Case
 
Reproducibility 1
Reproducibility 1Reproducibility 1
Reproducibility 1
 
NETTAB 2012
NETTAB 2012NETTAB 2012
NETTAB 2012
 
Supporting researchers in the molecular life sciences Jeff Christiansen
Supporting researchers in the molecular life sciences Jeff Christiansen Supporting researchers in the molecular life sciences Jeff Christiansen
Supporting researchers in the molecular life sciences Jeff Christiansen
 
Connecting life sciences data at the European Bioinformatics Institute
Connecting life sciences data at the European Bioinformatics InstituteConnecting life sciences data at the European Bioinformatics Institute
Connecting life sciences data at the European Bioinformatics Institute
 
EMBL-EBI
EMBL-EBIEMBL-EBI
EMBL-EBI
 
Web Apollo at Genome Informatics 2014
Web Apollo at Genome Informatics 2014Web Apollo at Genome Informatics 2014
Web Apollo at Genome Informatics 2014
 
Deep learning for extracting protein-protein interactions from biomedical lit...
Deep learning for extracting protein-protein interactions from biomedical lit...Deep learning for extracting protein-protein interactions from biomedical lit...
Deep learning for extracting protein-protein interactions from biomedical lit...
 

Plus de Rutger Vos

Anna Karenina on hooves - what makes an animal fit for domestication?
Anna Karenina on hooves - what makes an animal fit for domestication?Anna Karenina on hooves - what makes an animal fit for domestication?
Anna Karenina on hooves - what makes an animal fit for domestication?Rutger Vos
 
10 Misverstanden Over Evolutie
10 Misverstanden Over Evolutie10 Misverstanden Over Evolutie
10 Misverstanden Over EvolutieRutger Vos
 
Crash Course Biodiversiteit
Crash Course BiodiversiteitCrash Course Biodiversiteit
Crash Course BiodiversiteitRutger Vos
 
Natural history research as a replicable data science
Natural history research as a replicable data scienceNatural history research as a replicable data science
Natural history research as a replicable data scienceRutger Vos
 
Species delimitation - species limits and character evolution
Species delimitation - species limits and character evolutionSpecies delimitation - species limits and character evolution
Species delimitation - species limits and character evolutionRutger Vos
 
Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.
Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.
Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.Rutger Vos
 
Robot eye for the butterfly
Robot eye for the butterflyRobot eye for the butterfly
Robot eye for the butterflyRutger Vos
 
Taxonomic classification of digitized specimens using machine learning
Taxonomic classification of digitized specimens using machine learningTaxonomic classification of digitized specimens using machine learning
Taxonomic classification of digitized specimens using machine learningRutger Vos
 
Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...
Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...
Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...Rutger Vos
 
Assembling the Tree of Life from public DNA sequence data
Assembling the Tree of Life from public DNA sequence dataAssembling the Tree of Life from public DNA sequence data
Assembling the Tree of Life from public DNA sequence dataRutger Vos
 
Hoe leer je een robot soorten te herkennen?
Hoe leer je een robot soorten te herkennen?Hoe leer je een robot soorten te herkennen?
Hoe leer je een robot soorten te herkennen?Rutger Vos
 
Modeling the biosphere: the natural historian's perspective
Modeling the biosphere: the natural historian's perspectiveModeling the biosphere: the natural historian's perspective
Modeling the biosphere: the natural historian's perspectiveRutger Vos
 
Kunnen we een tomaat van 400 jaar oud proeven
Kunnen we een tomaat van 400 jaar oud proevenKunnen we een tomaat van 400 jaar oud proeven
Kunnen we een tomaat van 400 jaar oud proevenRutger Vos
 
PhyloTastic: names-based phyloinformatic data integration
PhyloTastic: names-based phyloinformatic data integrationPhyloTastic: names-based phyloinformatic data integration
PhyloTastic: names-based phyloinformatic data integrationRutger Vos
 
SUPERSMART pipeline intro
SUPERSMART pipeline introSUPERSMART pipeline intro
SUPERSMART pipeline introRutger Vos
 
Reconstructing paleoenvironments using metagenomics
Reconstructing paleoenvironments using metagenomicsReconstructing paleoenvironments using metagenomics
Reconstructing paleoenvironments using metagenomicsRutger Vos
 
Synthesising disparate data resources to obtain composite estimates of geophy...
Synthesising disparate data resources to obtain composite estimates of geophy...Synthesising disparate data resources to obtain composite estimates of geophy...
Synthesising disparate data resources to obtain composite estimates of geophy...Rutger Vos
 
The Galaxy bioinformatics workflow environment
The Galaxy bioinformatics workflow environmentThe Galaxy bioinformatics workflow environment
The Galaxy bioinformatics workflow environmentRutger Vos
 
Retrieving useful information from connected specimen- and data collections
Retrieving useful information from connected specimen- and data collectionsRetrieving useful information from connected specimen- and data collections
Retrieving useful information from connected specimen- and data collectionsRutger Vos
 
NeXML - phylogenetic data as XML
NeXML - phylogenetic data as XMLNeXML - phylogenetic data as XML
NeXML - phylogenetic data as XMLRutger Vos
 

Plus de Rutger Vos (20)

Anna Karenina on hooves - what makes an animal fit for domestication?
Anna Karenina on hooves - what makes an animal fit for domestication?Anna Karenina on hooves - what makes an animal fit for domestication?
Anna Karenina on hooves - what makes an animal fit for domestication?
 
10 Misverstanden Over Evolutie
10 Misverstanden Over Evolutie10 Misverstanden Over Evolutie
10 Misverstanden Over Evolutie
 
Crash Course Biodiversiteit
Crash Course BiodiversiteitCrash Course Biodiversiteit
Crash Course Biodiversiteit
 
Natural history research as a replicable data science
Natural history research as a replicable data scienceNatural history research as a replicable data science
Natural history research as a replicable data science
 
Species delimitation - species limits and character evolution
Species delimitation - species limits and character evolutionSpecies delimitation - species limits and character evolution
Species delimitation - species limits and character evolution
 
Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.
Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.
Onderzoek bio-informatica Naturalis. Raad voor Cultuur 2017.
 
Robot eye for the butterfly
Robot eye for the butterflyRobot eye for the butterfly
Robot eye for the butterfly
 
Taxonomic classification of digitized specimens using machine learning
Taxonomic classification of digitized specimens using machine learningTaxonomic classification of digitized specimens using machine learning
Taxonomic classification of digitized specimens using machine learning
 
Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...
Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...
Self-Updating Platform for the Estimation of Rates of Speciation, Migration A...
 
Assembling the Tree of Life from public DNA sequence data
Assembling the Tree of Life from public DNA sequence dataAssembling the Tree of Life from public DNA sequence data
Assembling the Tree of Life from public DNA sequence data
 
Hoe leer je een robot soorten te herkennen?
Hoe leer je een robot soorten te herkennen?Hoe leer je een robot soorten te herkennen?
Hoe leer je een robot soorten te herkennen?
 
Modeling the biosphere: the natural historian's perspective
Modeling the biosphere: the natural historian's perspectiveModeling the biosphere: the natural historian's perspective
Modeling the biosphere: the natural historian's perspective
 
Kunnen we een tomaat van 400 jaar oud proeven
Kunnen we een tomaat van 400 jaar oud proevenKunnen we een tomaat van 400 jaar oud proeven
Kunnen we een tomaat van 400 jaar oud proeven
 
PhyloTastic: names-based phyloinformatic data integration
PhyloTastic: names-based phyloinformatic data integrationPhyloTastic: names-based phyloinformatic data integration
PhyloTastic: names-based phyloinformatic data integration
 
SUPERSMART pipeline intro
SUPERSMART pipeline introSUPERSMART pipeline intro
SUPERSMART pipeline intro
 
Reconstructing paleoenvironments using metagenomics
Reconstructing paleoenvironments using metagenomicsReconstructing paleoenvironments using metagenomics
Reconstructing paleoenvironments using metagenomics
 
Synthesising disparate data resources to obtain composite estimates of geophy...
Synthesising disparate data resources to obtain composite estimates of geophy...Synthesising disparate data resources to obtain composite estimates of geophy...
Synthesising disparate data resources to obtain composite estimates of geophy...
 
The Galaxy bioinformatics workflow environment
The Galaxy bioinformatics workflow environmentThe Galaxy bioinformatics workflow environment
The Galaxy bioinformatics workflow environment
 
Retrieving useful information from connected specimen- and data collections
Retrieving useful information from connected specimen- and data collectionsRetrieving useful information from connected specimen- and data collections
Retrieving useful information from connected specimen- and data collections
 
NeXML - phylogenetic data as XML
NeXML - phylogenetic data as XMLNeXML - phylogenetic data as XML
NeXML - phylogenetic data as XML
 

Dernier

Streamlining Python Development: A Guide to a Modern Project Setup
Streamlining Python Development: A Guide to a Modern Project SetupStreamlining Python Development: A Guide to a Modern Project Setup
Streamlining Python Development: A Guide to a Modern Project SetupFlorian Wilhelm
 
Scanning the Internet for External Cloud Exposures via SSL Certs
Scanning the Internet for External Cloud Exposures via SSL CertsScanning the Internet for External Cloud Exposures via SSL Certs
Scanning the Internet for External Cloud Exposures via SSL CertsRizwan Syed
 
Nell’iperspazio con Rocket: il Framework Web di Rust!
Nell’iperspazio con Rocket: il Framework Web di Rust!Nell’iperspazio con Rocket: il Framework Web di Rust!
Nell’iperspazio con Rocket: il Framework Web di Rust!Commit University
 
TeamStation AI System Report LATAM IT Salaries 2024
TeamStation AI System Report LATAM IT Salaries 2024TeamStation AI System Report LATAM IT Salaries 2024
TeamStation AI System Report LATAM IT Salaries 2024Lonnie McRorey
 
Developer Data Modeling Mistakes: From Postgres to NoSQL
Developer Data Modeling Mistakes: From Postgres to NoSQLDeveloper Data Modeling Mistakes: From Postgres to NoSQL
Developer Data Modeling Mistakes: From Postgres to NoSQLScyllaDB
 
Human Factors of XR: Using Human Factors to Design XR Systems
Human Factors of XR: Using Human Factors to Design XR SystemsHuman Factors of XR: Using Human Factors to Design XR Systems
Human Factors of XR: Using Human Factors to Design XR SystemsMark Billinghurst
 
Commit 2024 - Secret Management made easy
Commit 2024 - Secret Management made easyCommit 2024 - Secret Management made easy
Commit 2024 - Secret Management made easyAlfredo García Lavilla
 
Ensuring Technical Readiness For Copilot in Microsoft 365
Ensuring Technical Readiness For Copilot in Microsoft 365Ensuring Technical Readiness For Copilot in Microsoft 365
Ensuring Technical Readiness For Copilot in Microsoft 3652toLead Limited
 
CloudStudio User manual (basic edition):
CloudStudio User manual (basic edition):CloudStudio User manual (basic edition):
CloudStudio User manual (basic edition):comworks
 
"LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks...
"LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks..."LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks...
"LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks...Fwdays
 
DevoxxFR 2024 Reproducible Builds with Apache Maven
DevoxxFR 2024 Reproducible Builds with Apache MavenDevoxxFR 2024 Reproducible Builds with Apache Maven
DevoxxFR 2024 Reproducible Builds with Apache MavenHervé Boutemy
 
DevEX - reference for building teams, processes, and platforms
DevEX - reference for building teams, processes, and platformsDevEX - reference for building teams, processes, and platforms
DevEX - reference for building teams, processes, and platformsSergiu Bodiu
 
DSPy a system for AI to Write Prompts and Do Fine Tuning
DSPy a system for AI to Write Prompts and Do Fine TuningDSPy a system for AI to Write Prompts and Do Fine Tuning
DSPy a system for AI to Write Prompts and Do Fine TuningLars Bell
 
"ML in Production",Oleksandr Bagan
"ML in Production",Oleksandr Bagan"ML in Production",Oleksandr Bagan
"ML in Production",Oleksandr BaganFwdays
 
How to write a Business Continuity Plan
How to write a Business Continuity PlanHow to write a Business Continuity Plan
How to write a Business Continuity PlanDatabarracks
 
Advanced Test Driven-Development @ php[tek] 2024
Advanced Test Driven-Development @ php[tek] 2024Advanced Test Driven-Development @ php[tek] 2024
Advanced Test Driven-Development @ php[tek] 2024Scott Keck-Warren
 
TrustArc Webinar - How to Build Consumer Trust Through Data Privacy
TrustArc Webinar - How to Build Consumer Trust Through Data PrivacyTrustArc Webinar - How to Build Consumer Trust Through Data Privacy
TrustArc Webinar - How to Build Consumer Trust Through Data PrivacyTrustArc
 
"Debugging python applications inside k8s environment", Andrii Soldatenko
"Debugging python applications inside k8s environment", Andrii Soldatenko"Debugging python applications inside k8s environment", Andrii Soldatenko
"Debugging python applications inside k8s environment", Andrii SoldatenkoFwdays
 
Advanced Computer Architecture – An Introduction
Advanced Computer Architecture – An IntroductionAdvanced Computer Architecture – An Introduction
Advanced Computer Architecture – An IntroductionDilum Bandara
 
Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024
Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024
Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024BookNet Canada
 

Dernier (20)

Streamlining Python Development: A Guide to a Modern Project Setup
Streamlining Python Development: A Guide to a Modern Project SetupStreamlining Python Development: A Guide to a Modern Project Setup
Streamlining Python Development: A Guide to a Modern Project Setup
 
Scanning the Internet for External Cloud Exposures via SSL Certs
Scanning the Internet for External Cloud Exposures via SSL CertsScanning the Internet for External Cloud Exposures via SSL Certs
Scanning the Internet for External Cloud Exposures via SSL Certs
 
Nell’iperspazio con Rocket: il Framework Web di Rust!
Nell’iperspazio con Rocket: il Framework Web di Rust!Nell’iperspazio con Rocket: il Framework Web di Rust!
Nell’iperspazio con Rocket: il Framework Web di Rust!
 
TeamStation AI System Report LATAM IT Salaries 2024
TeamStation AI System Report LATAM IT Salaries 2024TeamStation AI System Report LATAM IT Salaries 2024
TeamStation AI System Report LATAM IT Salaries 2024
 
Developer Data Modeling Mistakes: From Postgres to NoSQL
Developer Data Modeling Mistakes: From Postgres to NoSQLDeveloper Data Modeling Mistakes: From Postgres to NoSQL
Developer Data Modeling Mistakes: From Postgres to NoSQL
 
Human Factors of XR: Using Human Factors to Design XR Systems
Human Factors of XR: Using Human Factors to Design XR SystemsHuman Factors of XR: Using Human Factors to Design XR Systems
Human Factors of XR: Using Human Factors to Design XR Systems
 
Commit 2024 - Secret Management made easy
Commit 2024 - Secret Management made easyCommit 2024 - Secret Management made easy
Commit 2024 - Secret Management made easy
 
Ensuring Technical Readiness For Copilot in Microsoft 365
Ensuring Technical Readiness For Copilot in Microsoft 365Ensuring Technical Readiness For Copilot in Microsoft 365
Ensuring Technical Readiness For Copilot in Microsoft 365
 
CloudStudio User manual (basic edition):
CloudStudio User manual (basic edition):CloudStudio User manual (basic edition):
CloudStudio User manual (basic edition):
 
"LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks...
"LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks..."LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks...
"LLMs for Python Engineers: Advanced Data Analysis and Semantic Kernel",Oleks...
 
DevoxxFR 2024 Reproducible Builds with Apache Maven
DevoxxFR 2024 Reproducible Builds with Apache MavenDevoxxFR 2024 Reproducible Builds with Apache Maven
DevoxxFR 2024 Reproducible Builds with Apache Maven
 
DevEX - reference for building teams, processes, and platforms
DevEX - reference for building teams, processes, and platformsDevEX - reference for building teams, processes, and platforms
DevEX - reference for building teams, processes, and platforms
 
DSPy a system for AI to Write Prompts and Do Fine Tuning
DSPy a system for AI to Write Prompts and Do Fine TuningDSPy a system for AI to Write Prompts and Do Fine Tuning
DSPy a system for AI to Write Prompts and Do Fine Tuning
 
"ML in Production",Oleksandr Bagan
"ML in Production",Oleksandr Bagan"ML in Production",Oleksandr Bagan
"ML in Production",Oleksandr Bagan
 
How to write a Business Continuity Plan
How to write a Business Continuity PlanHow to write a Business Continuity Plan
How to write a Business Continuity Plan
 
Advanced Test Driven-Development @ php[tek] 2024
Advanced Test Driven-Development @ php[tek] 2024Advanced Test Driven-Development @ php[tek] 2024
Advanced Test Driven-Development @ php[tek] 2024
 
TrustArc Webinar - How to Build Consumer Trust Through Data Privacy
TrustArc Webinar - How to Build Consumer Trust Through Data PrivacyTrustArc Webinar - How to Build Consumer Trust Through Data Privacy
TrustArc Webinar - How to Build Consumer Trust Through Data Privacy
 
"Debugging python applications inside k8s environment", Andrii Soldatenko
"Debugging python applications inside k8s environment", Andrii Soldatenko"Debugging python applications inside k8s environment", Andrii Soldatenko
"Debugging python applications inside k8s environment", Andrii Soldatenko
 
Advanced Computer Architecture – An Introduction
Advanced Computer Architecture – An IntroductionAdvanced Computer Architecture – An Introduction
Advanced Computer Architecture – An Introduction
 
Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024
Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024
Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024
 

Bio::Phylo - phyloinformatic analysis using perl

  • 1. Bio::Phylo  –        Phyloinformatic  analysis  using  Perl     Rutger  Vos  
  • 2. Introduction   Bio::Phylo  is  a  BioPerl-­‐compa1ble  phyloinforma1c   toolkit  that  implements  EvoIO  concepts  and   technologies  
  • 3. Use  Cases     PhyloInforma1c  workflows,   data  transforma1on     PhyloWS  servers  and   clients     Visualiza:on     Analysis  and  simula1on  of   tree  shapes  
  • 4. Future  Directions     Tighter  integra1on  in  BioPerl     Extending  PhyloWS  func1onality     SWIG  backends,  e.g.  HyPhy,  NCL,  Beagle  
  • 5. Learn  More     hKp://search.cpan.org/dist/Bio-­‐Phylo       Or  google  Bio::Phylo     Or  @rvosa     Computa1onal  Phyloinforma1cs:  A  BGI-­‐Shenzhen  and  NESCent   Course  (August  5-­‐17  2010)  
  • 6. Acknowledgements     Jason  Caravas     Klaas  Hartmann     Mark  Jensen     Chase  Miller     Aki  Mimoto