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treebase.org

TreeBASE Web

As of April 2014, TreeBASE contains data for 4,076 publications written by 8,777 different authors. These studies analyzed 8,233 matrices and resulted in 12,817 trees with 761,460 taxon labels that mapped to 104,593 distinct taxa. The current release includes a host of new features and improvements over the previous TreeBASE prototype. New features include:. Richer annotation of metadata (journal DOIs, specimen georeferences, Genbank accession numbers, etc). The ability to search on tree topology.

http://www.treebase.org/

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TreeBASE Web | treebase.org Reviews
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As of April 2014, TreeBASE contains data for 4,076 publications written by 8,777 different authors. These studies analyzed 8,233 matrices and resulted in 12,817 trees with 761,460 taxon labels that mapped to 104,593 distinct taxa. The current release includes a host of new features and improvements over the previous TreeBASE prototype. New features include:. Richer annotation of metadata (journal DOIs, specimen georeferences, Genbank accession numbers, etc). The ability to search on tree topology.
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1 search treebase
2 submission tutorial
3 overview
4 technology
5 people
6 partnerships
7 references
8 nsf data management
9 data access
10 journals
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search treebase,submission tutorial,overview,technology,people,partnerships,references,nsf data management,data access,journals,welcome to treebase,some recent additions,and nexml
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TreeBASE Web | treebase.org Reviews

https://treebase.org

As of April 2014, TreeBASE contains data for 4,076 publications written by 8,777 different authors. These studies analyzed 8,233 matrices and resulted in 12,817 trees with 761,460 taxon labels that mapped to 104,593 distinct taxa. The current release includes a host of new features and improvements over the previous TreeBASE prototype. New features include:. Richer annotation of metadata (journal DOIs, specimen georeferences, Genbank accession numbers, etc). The ability to search on tree topology.

INTERNAL PAGES

treebase.org treebase.org
1

TreeBASE Web

http://treebase.org/treebase-web/dataMan.html;jsessionid=26BCFCAB0666E242395D6D6248B8F3AB

NSF Data Management Plan. To foster the sharing and dissemination of data produced by sponsored research, the National Science Foundation requires a data management plan for all proposals. The kinds of data that must be shared generally include whatever the scientific community needs to validate research findings. In particular, researchers must present a plan to share (1) analyzed data, (2) metadata that provide provenance information, and (3) metadata that describe how the data were generated. In addit...

2

TreeBASE Web

http://treebase.org/treebase-web/urlAPI.html;jsessionid=26BCFCAB0666E242395D6D6248B8F3AB

Web Browser User Interface. Primary access to the database is through its web interface, where users most commonly search on authors, citations, and taxa. Datasets are downloadable in NEXUS and NeXML formats for further analysis. In addition to the web interface, TreeBASE can be accessed programmatically through a stateless web service interface and URL architecture. This interface can deliver data in several different formats, including NEWICK, NEXUS, JSON, NeXML. Is on the TreeBASE wiki. URI to a study.

3

TreeBASE Web

http://treebase.org/treebase-web/journal.html;jsessionid=26BCFCAB0666E242395D6D6248B8F3AB

PhyloWS URL to Studies in TreeBASE. Note: add &format=rss1 to the end of each URL to use it in your favorite RSS reader). Query=prism.publicationName= &quotAmerican Journal of Botany&quot. Query=prism.publicationName= &quotAmerican Naturalist&quot. Query=prism.publicationName= &quotApplications in Plant Sciences&quot. Query=prism.publicationName= &quotAquatic Biology&quot. Query=prism.publicationName= &quotBasic and Applied Ecology&quot. Query=prism.publicationName= &quotBiology Letters&quot. Query=prism...

4

TreeBASE-TreeBASE Login

http://treebase.org/treebase-web/user/processUser.html;jsessionid=26BCFCAB0666E242395D6D6248B8F3AB

A Special Note to Submitters to the Previous Version of TreeBASE:. If you started a submission in the previous version, but that submission remained in progress, you will need to start the submission all over again in this new version of TreeBASE. Please fill in following information to login. Click here to Signup. Have your password e-mailed to you.

5

TreeBASE Web

http://treebase.org/treebase-web/home.html

As of April 2014, TreeBASE contains data for 4,076 publications written by 8,777 different authors. These studies analyzed 8,233 matrices and resulted in 12,817 trees with 761,460 taxon labels that mapped to 104,593 distinct taxa. The current release includes a host of new features and improvements over the previous TreeBASE prototype. New features include:. Richer annotation of metadata (journal DOIs, specimen georeferences, Genbank accession numbers, etc). The ability to search on tree topology.

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evo-karma.blogspot.com evo-karma.blogspot.com

Evo-Karma: Share your trees and reduce your carbon footprint

http://evo-karma.blogspot.com/2012/04/share-your-trees-and-reduce-your-carbon.html

All about the good, the bad and the ugly things in life but mainly stuff about evolution, diversity of life, life forms and morphogenesis, phylogenies, trees and insects. Lots of biological news and comments. Cool discoveries of new species etc. Friday, April 13, 2012. Share your trees and reduce your carbon footprint. I recently attended the SPDG. At the SPDG, we also had a video conference from Erick Matsen. And fortunately this time it was on topic. Erick is the organiser of phyloseminar. The pace at ...

bdj.pensoft.net bdj.pensoft.net

About

http://bdj.pensoft.net/about

Frequently Asked Questions (FAQ). Institutional and Other Membership Plans. Writing a Press Release. Benefits for Editors and Reviewers. The journal will publish papers in biodiversity science containing taxonomic, floristic/faunistic, morphological, genomic, phylogenetic, ecological or environmental data on any taxon of any geological age from any part of the world with no lower or upper. Limit to manuscript size. For example:. Local or regional checklists and inventories;. For more information, you may...

opentree.wikispaces.com opentree.wikispaces.com

Open Tree of Life - Collaborators

http://opentree.wikispaces.com/Collaborators

Skip to main content. Get your Wikispaces Classroom now:. The easiest way to manage your class. Open Tree of Life. We are collaborating (formally and informally) with several other projects:. Using handshaking protocols to move data between Open Tree of Life and Dryad. Dryad will serve as the permanent archive for phylogenetic data associated with published articles (funded via the original Open Tree of Life grant). Working with the Phyloinformatics Research Foundation. And Tree of LIfe Web Project.

ceiba.biosci.arizona.edu ceiba.biosci.arizona.edu

Sanderson Lab People

http://ceiba.biosci.arizona.edu/people.html

Phylogenetics, Plant Systematics, and Computational Biology. Tree of Life - Phylota. Mike Sanderson, PI. Some former lab members. Department of Ecology and Evolutionary Biology. 1041 E. Lowell, Tucson, AZ 85721-0088. Phone: 520-626-6848 - FAX: 520-621-9190.

taxonomy.zoology.gla.ac.uk taxonomy.zoology.gla.ac.uk

Page Lab - Links

http://taxonomy.zoology.gla.ac.uk/links.html

Taxonomy, Systematics, and Bioinformatics. At the University of Glasgow. Mary Walsh's fascinating site deals with scientific communication, as well as providing insight into the design of TreeBASE. Gutell lab Comparative RNA Web Site. SSU rRNA Secondary Structure Prediction and Alignment. Oxford University Evolutionary Biology Group. Paul Harvey, Andy Rambaut, Mike Charleston, etc.). Taxonomy, Systematics and Evolution at Imperial College. Andy Purvis, Don Quicke, Alfried Vogler, etc.).

carlystrasser.net carlystrasser.net

February | 2014 | Carly Strasser

http://carlystrasser.net/2014/02

Open Science Data Sharing Advocate. Month / February 2014. Institutional Repositories: Part 2. A few weeks back I wrote a post describing institutional repositories. IRs for short). IRs have been around for a while, with the impetus of making scholarly publications open access. However more recently, IRs have been cited as potential repositories for datasets, code, and other scholarly outputs. Here I continue the discussion of IRs and compare their utility to DRs. Honest criticism of IRs. Researchers are...

biodiversitydatajournal.com biodiversitydatajournal.com

About

http://biodiversitydatajournal.com/about

Frequently Asked Questions (FAQ). Institutional and Other Membership Plans. Writing a Press Release. Benefits for Editors and Reviewers. The journal will publish papers in biodiversity science containing taxonomic, floristic/faunistic, morphological, genomic, phylogenetic, ecological or environmental data on any taxon of any geological age from any part of the world with no lower or upper. Limit to manuscript size. For example:. Local or regional checklists and inventories;. For more information, you may...

lappland.io lappland.io

Lab - Lappland. Inside Out.

http://lappland.io/blog/category/lab

Lappland. Inside Out. Scientific peer-review as web-annotations: an experiment. Recently I was invited by the journal F1000 Research. To review an article about Software Carpentry. A wildly popular programming best-practices teaching workshop. As I sat down to write the review, loathing the highly antiquated and onerous process that peer-review remains to this day, I realized that the publishing model . Mar 24, 2014. Data flirting, or an attempt to save a beautiful tree? Received the following request.

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TreeBASE Web

As of April 2014, TreeBASE contains data for 4,076 publications written by 8,777 different authors. These studies analyzed 8,233 matrices and resulted in 12,817 trees with 761,460 taxon labels that mapped to 104,593 distinct taxa. The current release includes a host of new features and improvements over the previous TreeBASE prototype. New features include:. Richer annotation of metadata (journal DOIs, specimen georeferences, Genbank accession numbers, etc). The ability to search on tree topology.

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