Difference between revisions of "PAG 2014"
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[[File:pagxxii.png|right|link=http://www.intlpag.org/2014/|Plant and Animal Genomes conference, aka PAG XXII]] | [[File:pagxxii.png|right|link=http://www.intlpag.org/2014/|Plant and Animal Genomes conference, aka PAG XXII]] | ||
− | There is plenty of GMOD content at the [http://www.intlpag.org/2014/ Plant and Animal Genomes (PAG)] conference in January 2014. 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. | + | There is plenty of GMOD content at the [http://www.intlpag.org/2014/ Plant and Animal Genomes (PAG)] conference in January 2014. 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 [http://flic.kr/s/aHsjQCSTME Scott Cain's flickr] set of poster pictures that show GMOD software in use. |
+ | |||
+ | PAG XXII is followed by the [[Jan 2014 GMOD Meeting|GMOD Community Meeting on January 16th and 17th]]. | ||
==Core GMOD Content== | ==Core GMOD Content== | ||
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{| class="wikitable" | {| class="wikitable" | ||
|- | |- | ||
− | ! Date !! Time !! Session | + | ! Date !! Time !! Session !! Location || Topic |
+ | |- | ||
+ | | 11 Jan. (Sat.) ||4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=11AC Next Generation Genome Annotation and Analysis] || Towne || [[MAKER]] | ||
+ | |- | ||
+ | | 12 Jan. (Sun.) || 1:30 pm - 3:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1CAE Generic Genome Browser] Workshop ([https://s3.amazonaws.com/gbrowse-tutorials/GBrowse_tutorial_2014.ova VM Download]) || California || [[GBrowse]] | ||
|- | |- | ||
− | | | + | | 13 Jan. (Mon.) || 10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAECB 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 || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AEC6 Galaxy for NGS Data Analysis: A Hands-on Workshop] || California || [[Galaxy]] |
|- | |- | ||
− | | 15 Jan. (Wed.) ||10:30 am - 5:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1FAC GMOD] | + | | 15 Jan. (Wed.) ||10:30 am - 5:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1FAC GMOD] Workshop || Golden West || ''see below'' |
|} | |} | ||
− | + | View the [[Media:Gitc-giab-poster.pdf|GMOD in the Cloud and GMOD in a Box: Instant Virtual Servers for Genomics Data poster]]. | |
==All Day GMOD Workshop== | ==All Day GMOD Workshop== | ||
[http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1FAC The GMOD workshop] on Wednesday January 15th will be held in the Golden West room. The schedule will be as follows: | [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1FAC 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!'' | ||
{| class="wikitable" | {| class="wikitable" | ||
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| 11:10 AM - 11:50 AM || W396 - URGI Plant and Fungi Platform: Distributed Resources through GMOD Tools || ''[http://urgi.versailles.inra.fr/ URGI] team'' | | 11:10 AM - 11:50 AM || W396 - URGI Plant and Fungi Platform: Distributed Resources through GMOD Tools || ''[http://urgi.versailles.inra.fr/ URGI] team'' | ||
|- | |- | ||
− | | 11:50 AM - 12:30 PM || W397 - [[Galaxy]] CloudMan: A Gentle Introduction to Data Analysis on the Cloud || Dave Clements ''Galaxy Project'' | + | | 11:50 AM - 12:30 PM || W397 - [[Galaxy]] CloudMan: A Gentle Introduction to Data Analysis on the Cloud, [[media:PAG2014_GalaxyCloudMan.pdf|Slides]] || [[User:Clements|Dave Clements]], [http://galaxyproject.org ''Galaxy Project''] |
|- | |- | ||
− | | | + | | 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'' | | 3:05 PM - 3:45 PM || W400 - [[WebApollo]]: A Web-based Sequence Annotation Editor for Distributed Community Annotation || Robert Buels, ''JBrowse developer'', Ed Lee ''WebApollo developer'' | ||
Line 45: | Line 53: | ||
{| | {| | ||
− | ! Date !! Event Details | + | ! Date !! Event Details !! Location |
− | |- colspan= | + | |- colspan=3 |
| '''Saturday 11th January''' | | '''Saturday 11th January''' | ||
|- | |- | ||
− | | 10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1DA8 DNA Subway: Genomics, DNA Barcoding, and RNA-Seq Made Easy for the Undergraduate Classroom] | + | | 10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1DA8 DNA Subway: Genomics, DNA Barcoding, and RNA-Seq Made Easy for the Undergraduate Classroom] || California |
|- | |- | ||
− | |10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=11AB Managing Crop Phenotype Data] || | + | | 10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=11AB Managing Crop Phenotype Data] || Pacific Salon 2 |
|- | |- | ||
− | |1:30 pm - 3:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1B Computer Demos 1] || | + | | 1:30 pm - 3:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1B Computer Demos 1] || California |
|- | |- | ||
− | |4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=11AC Next Generation Genome Annotation and Analysis] || | + | | 4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=11AC Next Generation Genome Annotation and Analysis] || Towne |
− | |- colspan= | + | |- colspan=3 |
| '''Sunday 12th January''' | | '''Sunday 12th January''' | ||
|- | |- | ||
− | |10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18A8C8 Solanaceae] | + | | 10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18A8C8 Solanaceae] || Pacific Salon 1 |
|- | |- | ||
− | |1:30 pm - 3:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1CAE Generic Genome Browser] | + | | 1:30 pm - 3:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1CAE Generic Genome Browser] || California |
|- | |- | ||
− | |4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAB Coffee Genomics] | + | | 4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAB Coffee Genomics] || Pacific Salon 4-5 (2nd Floor) |
− | |- colspan= | + | |- colspan=3 |
| '''Monday 13th January''' | | '''Monday 13th January''' | ||
|- | |- | ||
− | |7:00 am - 10:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1BA8CC Bioenergy] | + | | 7:00 am - 10:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1BA8CC Bioenergy] || Grand Exhibit Hall |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P428: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1EACC7 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 || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P594: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=10ABCB Genome-Wide DNA Methylation Profile of the Muscle (longissimus dorsi) Tissue in Swine] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P986: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AACEC2 ATGC Transcriptomics: An Application to Explore and Analyze de novo Transcriptomic Data] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P988: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AACECC The South Green Bioinformatics Platform] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P994: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AACDC0 Intermine Webservices for Phytozome] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P1008: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AACC7 Bioinformatic Solutions in Forest Genomics: Accessing the Treegenes Database] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P1014: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAFCA Bovine Genome Database: Resources for Re-Annotating the Bos taurus Genome] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P1022: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAECB GMOD in the Cloud and GMOD in a Box] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P1038: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AA0CE Defining haplotypes in genic and non-genic regions using user specified window size] || Poster session |
|- | |- | ||
− | |10:00 am - 11:30 am || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |10:00 am - 11:30 am || #P1050: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1DA9CA Integrative System for Gene Family Gathering and Analysis in a Context of Crops’ Stress Response Study] || Poster session |
|- | |- | ||
− | |12:50 pm - 3:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1EAC Arabidopsis Information Portal & Intl Arabidopsis Informatics Consortium] | + | | 12:50 pm - 3:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1EAC Arabidopsis Information Portal & Intl Arabidopsis Informatics Consortium] || Pacific Salon 6-7 (2nd Floor) |
|- | |- | ||
− | |12:50 pm - 3:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1A Computer Demos 2] | + | | 12:50 pm - 3:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1A Computer Demos 2] || California |
|- | |- | ||
− | |12:50 pm - 3:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1CAF Generation Challenge Program] | + | | 12:50 pm - 3:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1CAF Generation Challenge Program] || Royal Palm Salon 4,5,6 |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P723: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18A9CAC7 Assembly and Annotation of the Etheostoma tallapoosae Genome] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P981: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AACEC5 Crop Ontology, a Resource for Enabling Access to Breeders' Data] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P1005: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AACCA The Legume Information System 2014] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P1007: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AACC8 Accessing SGN Genomes through Tools] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P1011: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAFCD Liverwort Genome Analysis Using DDBJ Pipeline and Construction of the Database Annotated By the Research Communities] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAFCB Hymenoptera Genome Database: 2014 Update] || | + | |3:00 pm - 4:30 pm || #P1013: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAFCB Hymenoptera Genome Database: 2014 Update] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P1015: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1BAFCA Annotation of the Salix purpurea L. Genome and Gene Families Important for Biomass Production] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P1023: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1AAECA Crop>pedia] || Poster session |
|- | |- | ||
− | |3:00 pm - 4:30 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID= | + | |3:00 pm - 4:30 pm || #P1099: [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AACBC7 Re-Annotation of the Strawberry (Fragaria vesca) Genome] || Poster session |
− | |- colspan= | + | |- colspan=3 |
| '''Tuesday 14th January''' | | '''Tuesday 14th January''' | ||
|- | |- | ||
− | |10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AC Banana Genomics] | + | | 10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AC Banana Genomics] || Pacific Salon 6-7 (2nd Floor) |
|- | |- | ||
− | |10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18A8CA SGN Workshop - Solanaceae Genomes, Tools, and the Breeder’s Toolbox] | + | | 10:30 am - 12:40 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18A8CA SGN Workshop - Solanaceae Genomes, Tools, and the Breeder’s Toolbox] || Towne |
|- | |- | ||
− | |4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AEC6 Galaxy for NGS Data Analysis: A Hands-on Workshop] | + | | 4:00 pm - 6:10 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=18AEC6 Galaxy for NGS Data Analysis: A Hands-on Workshop] || California |
− | |- colspan= | + | |- colspan=3 |
| '''Wednesday 15th January''' | | '''Wednesday 15th January''' | ||
|- | |- | ||
− | |10:30 am - 5:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1FAC GMOD] | + | | 10:30 am - 5:00 pm || [http://pag14.mapyourshow.com/5_0/myshow/event_view.cfm?ScheduledSessionID=1FAC GMOD] || Golden West |
|} | |} | ||
+ | |||
+ | [[Category:Conferences]] |
Latest revision as of 23:55, 14 January 2015
There is plenty of GMOD content at the Plant and Animal Genomes (PAG) conference in January 2014. 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 | URGI team |
11:50 AM - 12:30 PM | W397 - Galaxy CloudMan: A Gentle Introduction to Data Analysis on the Cloud, Slides | Dave Clements, Galaxy Project |
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: