February 28th, 2014
By Gitzendanner, Matt

The Soltis Lab

Scientists and students in the Soltis Lab are currently working with a variety of technologies to investigate mechanisms of speciation, evolutionary relationships and character evolution in flowering and land plants at all taxonomic levels. Current projects include the study of higher level phylogenetic relationships and character evolution in the angiosperms, floral evolution, the genetic and genomic consequences of polyploidy, conservation genetics of rare plants, phylogeography, and biogeography. Please explore our website for more information on our research.
Soltis_lab

Research Computing accounts and storage

December 10th, 2018
By Gitzendanner, Matt

Request an Account

Once you have a Gatorlink, you can request an account on the form here: https://www.rc.ufl.edu/access/account-request/

List Pam as your sponsor.

Storage

/ufrc/soltis

  • We currently have 50TB of space
    • We will can add more storage, but /ufrc storage is $140/TB/yr, so not cheap!
  • Each user has their own directory
  • The /ufrc/soltis/share/ folder can be used for sharing, common data, etc.
  • If you have important data that you need regular access to and this should be backed up, keep it in /ufrc/soltis/share/Soltis_Backup/. This is the only location on /ufrc/soltis that is backed up in any way.

/orange/soltis

  • The /orange filesystem is somewhat slower than /ufrc, so not best for active data used in running jobs.
  • We currently have 52TB of space.
  • Each user can create their own directory.
  • This is a great place to archive data you are not actively working on.
  • It is much cheaper than /ufrc–only $25/TB/yr.
  • One copy of all raw sequence data should go in /orange/soltis/SequenceBackup.
    • This folder is backed up nightly.
  • If you have important data that you do not access regularly, you can put it in /orange/soltis/Backup_and_archive

Storage Backup

As noted above, the ONLY places that are backed up in any way are:

  • /ufrc/soltis/share/Soltis_Backup/: Use for important data that you need regular access to and this should be backed up.
  • /orange/soltis/Backup_and_archive/: Use for important data that you do not access regularly.
  • /home: Research Computing does maintain a daily snapshot of your home directory for one week. See this video for accessing your snapshots.
  • /orange/soltis/SequenceBackup: For archiving raw sequence data. Should be set to read only to minimize accidental data changes.

UF and Museum VPN

December 10th, 2018
By Gitzendanner, Matt

Museum VPN access

The Cisco AnyConnect VPN client can be downloaded from vpn.ufl.edu.

While you can connect with just your Gatorlink username, adding /flmnh to the end of your username will connect you to the Museum network and provide access to the Museum file server, the Geneious license server and other Museum resources.

Phylogeny and staminal evolution of Salvia (Lamiaceae, Nepetoideae) in East Asia

September 26th, 2018
By Gitzendanner, Matt

Hu, G.-X., A. Takano, B. T. Drew, E.-D. Liu, D. E. Soltis, P. S. Soltis, H. Peng, and C.-L. Xiang. 2018. Phylogeny and staminal evolution of Salvia (Lamiaceae, Nepetoideae) in East Asia. Ann Bot 122:649–668. [View on publisher’s site]

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Climatic niche comparison among ploidal levels in the classic autopolyploid system, Galax urceolata

September 26th, 2018
By Gitzendanner, Matt

Gaynor, M. L., D. B. Marchant, D. E. Soltis, and P. S. Soltis. 2018. Climatic niche comparison among ploidal levels in the classic autopolyploid system, Galax urceolata. American Journal of Botany. [View on publisher’s site]Galax plant

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Application of CRISPR/Cas9 to Tragopogon (Asteraceae), an evolutionary model for the study of polyploidy

August 13th, 2018
By Gitzendanner, Matt

Shan, S., E. V. Mavrodiev, R. Li, Z. Zhang, B. A. Hauser, P. S. Soltis, D. E. Soltis, and B. Yang. 2018. Application of CRISPR/Cas9 to Tragopogon (Asteraceae), an evolutionary model for the study of polyploidy. Molecular Ecology Resources [View on publisher’s site]

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Green digitization: Online botanical collections data answering real-world questions

August 13th, 2018
By Gitzendanner, Matt

Soltis, P. S., G. Nelson, and S. A. James. 2018. Green digitization: Online botanical collections data answering real-world questions. Applications in Plant Sciences 6:e1028. [View on publisher’s site]

Data Attribution from Download to Publication

August 13th, 2018
By Gitzendanner, Matt

Soltis, P. 2018. Data Attribution from Download to Publication. Biodiversity Information Science and Standards 2:e26060. [View on publisher’s site]

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Herbarium data: Global biodiversity and societal botanical needs for novel research

August 13th, 2018
By Gitzendanner, Matt

James, S. A., P. S. Soltis, L. Belbin, A. D. Chapman, G. Nelson, D. L. Paul, and M. Collins. 2018. Herbarium data: Global biodiversity and societal botanical needs for novel research. Applications in Plant Sciences 6:e1024. [View on publisher’s site]

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Earth BioGenome Project: Sequencing life for the future of life

August 13th, 2018
By Gitzendanner, Matt

Lewin, H. A., G. E. Robinson, W. J. Kress, W. J. Baker, J. Coddington, K. A. Crandall, R. Durbin, S. V. Edwards, F. Forest, M. T. P. Gilbert, M. M. Goldstein, I. V. Grigoriev, K. J. Hackett, D. Haussler, E. D. Jarvis, W. E. Johnson, A. Patrinos, S. Richards, J. C. Castilla-Rubio, M.-A. van Sluys, P. S. Soltis, X. Xu, H. Yang, and G. Zhang. 2018. Earth BioGenome Project: Sequencing life for the future of life. PNAS 115:4325–4333. [View on publisher’s site]

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Phylogeny and staminal evolution of Salvia (Lamiaceae, Nepetoideae) in East Asia

August 13th, 2018
By Gitzendanner, Matt

Hu, G.-X., A. Takano, B. T. Drew, E.-D. Liu, D. E. Soltis, P. S. Soltis, H. Peng, and C.-L. Xiang. 2018. Phylogeny and staminal evolution of Salvia (Lamiaceae, Nepetoideae) in East Asia. Ann Bot [View on publisher’s site]

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