GMOD
PAG 2014
There is plenty of GMOD content at the Plant and Animal Genomes (PAG) conference in January
- In addition to the day-long workshop on GMOD tools, there are also posters and presentations from many GMOD users, as well as from developers of GMOD tools. See Scott Cain’s flickr set of poster pictures that show GMOD software in use.
PAG XXII is followed by the GMOD Community Meeting on January 16th and 17th.
Core GMOD Content
There are a number of items focussed on the tools and services that GMOD provides. These are:
| Date | Time | Session | Location | Topic | |—-|—-|—-|—-|—-| | 11 Jan. (Sat.) | 4:00 pm - 6:10 pm | Next Generation Genome Annotation and Analysis | Towne | MAKER | | 12 Jan. (Sun.) | 1:30 pm - 3:40 pm | Generic Genome Browser Workshop (VM Download) | California | GBrowse | | 13 Jan. (Mon.) | 10:00 am - 11:30 am | GMOD in the Cloud and GMOD in a Box Poster | Grand Exhibit Hall | see poster title | | 14 Jan (Tues.) | 4:00 pm - 6:10 pm | Galaxy for NGS Data Analysis: A Hands-on Workshop | California | Galaxy | | 15 Jan. (Wed.) | 10:30 am - 5:00 pm | GMOD Workshop | Golden West | see below |
View the GMOD in the Cloud and GMOD in a Box: Instant Virtual Servers for Genomics Data poster.
All Day GMOD Workshop
The GMOD workshop on Wednesday January 15th will be held in the Golden West room. The schedule will be as follows:
Please note that the schedule on the PAG website does not include a lunch break. Please use the schedule below instead!
| 10:30 AM - 11:10 AM | W395 - GMOD in the Cloud | Scott Cain, GMOD Coordinator |
| 11:10 AM - 11:50 AM | W396 - URGI Plant and Fungi Platform: Distributed Resources through GMOD Tools | *<a href=”http://urgi.versailles.inra.fr/” class=”external text” |
| rel=”nofollow”>URGI</a> team* | ||
| 11:50 AM - 12:30 PM | W397 - Galaxy CloudMan: A Gentle Introduction to Data Analysis on the Cloud, <a href=”https://raw.githubusercontent.com/GMOD/gmod.github.io/main/mediawiki/images/1/1d/PAG2014_GalaxyCloudMan.pdf” | |
| class=”internal” title=”PAG2014 GalaxyCloudMan.pdf”>Slides</a> | Dave Clements, <a href=”http://galaxyproject.org” class=”external text” | |
| rel=”nofollow”>Galaxy Project</a> | ||
| 1:30 PM - 2:10 PM | W398 - JBrowse: A Next-Generation Genome Browser | Robert Buels, JBrowse developer |
| 2:10 PM - 2:50 PM | W399 - MAKER | Carson Holt, MAKER developer |
| 3:05 PM - 3:45 PM | W400 - WebApollo: A Web-based Sequence Annotation Editor for Distributed Community Annotation | Robert Buels, JBrowse developer, Ed Lee WebApollo developer |
| 3:45 PM - 4:25 PM | W401 - Tripal | Lacey-Anne Sanderson, Stephen P. Ficklin, Tripal developers |
GMOD Consumers and Providers
There are also many groups who use GMOD components showing posters, and giving presentations and workshops; here is a small selection:
| Date | Event Details | Location | |—-|—-|—-| | Saturday 11th January | | | | 10:30 am - 12:40 pm | DNA Subway: Genomics, DNA Barcoding, and RNA-Seq Made Easy for the Undergraduate Classroom | California | | 10:30 am - 12:40 pm | Managing Crop Phenotype Data | Pacific Salon 2 | | 1:30 pm - 3:40 pm | Computer Demos 1 | California | | 4:00 pm - 6:10 pm | Next Generation Genome Annotation and Analysis | Towne | | Sunday 12th January | | | | 10:30 am - 12:40 pm | Solanaceae | Pacific Salon 1 | | 1:30 pm - 3:40 pm | Generic Genome Browser | California | | 4:00 pm - 6:10 pm | Coffee Genomics | Pacific Salon 4-5 (2nd Floor) | | Monday 13th January | | | | 7:00 am - 10:00 pm | Bioenergy | Grand Exhibit Hall | | 10:00 am - 11:30 am | #P428: Identification of Candidate Genes at Rvi19 and Rvi20, Two Apple Scab Resistance Loci in the ‘Honeycrisp’ Apple (Malus x domestica) | Poster session | | 10:00 am - 11:30 am | #P594: Genome-Wide DNA Methylation Profile of the Muscle (longissimus dorsi) Tissue in Swine | Poster session | | 10:00 am - 11:30 am | #P986: ATGC Transcriptomics: An Application to Explore and Analyze de novo Transcriptomic Data | Poster session | | 10:00 am - 11:30 am | #P988: The South Green Bioinformatics Platform | Poster session | | 10:00 am - 11:30 am | #P994: Intermine Webservices for Phytozome | Poster session | | 10:00 am - 11:30 am | #P1008: Bioinformatic Solutions in Forest Genomics: Accessing the Treegenes Database | Poster session | | 10:00 am - 11:30 am | #P1014: Bovine Genome Database: Resources for Re-Annotating the Bos taurus Genome | Poster session | | 10:00 am - 11:30 am | #P1022: GMOD in the Cloud and GMOD in a Box | Poster session | | 10:00 am - 11:30 am | #P1038: Defining haplotypes in genic and non-genic regions using user specified window size | Poster session | | 10:00 am - 11:30 am | #P1050: Integrative System for Gene Family Gathering and Analysis in a Context of Crops’ Stress Response Study | Poster session | | 12:50 pm - 3:00 pm | Arabidopsis Information Portal & Intl Arabidopsis Informatics Consortium | Pacific Salon 6-7 (2nd Floor) | | 12:50 pm - 3:00 pm | Computer Demos 2 | California | | 12:50 pm - 3:00 pm | Generation Challenge Program | Royal Palm Salon 4,5,6 | | 3:00 pm - 4:30 pm | #P723: Assembly and Annotation of the Etheostoma tallapoosae Genome | Poster session | | 3:00 pm - 4:30 pm | #P981: Crop Ontology, a Resource for Enabling Access to Breeders’ Data | Poster session | | 3:00 pm - 4:30 pm | #P1005: The Legume Information System 2014 | Poster session | | 3:00 pm - 4:30 pm | #P1007: Accessing SGN Genomes through Tools | Poster session | | 3:00 pm - 4:30 pm | #P1011: Liverwort Genome Analysis Using DDBJ Pipeline and Construction of the Database Annotated By the Research Communities | Poster session | | 3:00 pm - 4:30 pm | #P1013: Hymenoptera Genome Database: 2014 Update | Poster session | | 3:00 pm - 4:30 pm | #P1015: Annotation of the Salix purpurea L. Genome and Gene Families Important for Biomass Production | Poster session | | 3:00 pm - 4:30 pm | #P1023: Crop>pedia | Poster session | | 3:00 pm - 4:30 pm | #P1099: Re-Annotation of the Strawberry (Fragaria vesca) Genome | Poster session | | Tuesday 14th January | | | | 10:30 am - 12:40 pm | Banana Genomics | Pacific Salon 6-7 (2nd Floor) | | 10:30 am - 12:40 pm | SGN Workshop - Solanaceae Genomes, Tools, and the Breeder’s Toolbox | Towne | | 4:00 pm - 6:10 pm | Galaxy for NGS Data Analysis: A Hands-on Workshop | California | | Wednesday 15th January | | | | 10:30 am - 5:00 pm | GMOD | Golden West |