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TitleTypeDateLocationCyVerse ContactInstitution ContactNotes
Society for Integrative and Comparative Biology (SICB)ConferenceJan 3-7Portland, ORBlake JoyceDon Mykles, Karen Burnett, David Durica, Jonathon Stillman, Carl Schmidt, Fiona McCarthyHosted a lunch community assessment session, a booth for determining community interests, published a peer-reviewed white paper, and a Journal of Visualized Experiments peer-reviewed publication.
XXIV International Plant and Animal Genome MeetingConferenceJan 9-13San Diego, CAJason W.N/A

We will have several workshops, sessions, and a booth.

Agenda for PAG

Phenology Ontology WorkshopWorkshopJan 12-17Ft. Collins, COR. WallsJill BaronWorkshop to build an initial draft of the Plant Phenology Ontology, funded by NEON and hosted by the USGS Powell Center.
iSamplES RCN annual meetingWorkshopJan 25-27RenCI, Chapel Hill, NCR. WallsKerstin Lehnert, Chris LenhardtAnnual meeting of the Internet of Samples for Earth Science Research Coordination Network
Software Carpentry Workshop: Programming in RWorkshopJan 23-24Tucson, AZUwe HilgertUwe

Curriculum: Intermediate R
58 applicants, 45 participants

BIO 27%, MIS 20%, MED 11%, MATH 11%, ENV 7%, SSBS 5%, ENGR 4%, Space Sciences 4%, IT 4%, Library 4%

Graduate Students 60%, Postdocs 19%, Faculty 7%, Ugraduates 7%, Staff 5%

Software Carpentry Workshop: Programming in PythonWorkshopJan 30-31Tucson, AZUwe HilgertUwe

Curriculum: Intermediate Python
67 applicants, 47 participants
MIS 36%, BIO 27%, MED 13%, ENGR 8%, MATH 6%, ENV 5%
Graduate Students 64%, Postdocs 18%, Ugraduates 6%, Staff 6%, Faculty 6%

Focus Forum Webinar:

Digital Imaging of Root Traits (DIRT)

WebinarJan 29onlineMarthaAlex Bucksch, Georgia Tech U

registration, materials

79 registrants, 34 participants

Data Carpentry Workshop on NGS DataWorkshopJan 19-20Stony Brook, NYJason W.Joshua RestData Carpentry workshop on iPlant/DC developed NGS lessons
Genomics in Education - The University of DelawareWorkshopFeb 1-2Newark, DEJason W.Alenka Hlousek-RadojcicStandard Genomics in Education Workshop
Tools and Services Workshop - The University of DelawareWorkshopFeb 3-4Newark, DEJason W.Alenka Hlousek-RadojcicStandard Tools and Services Workshop
Getting Started with iPlantWebinarFeb 10OnlineJason W. Monthly webinar for new account holders
PHOIBOS2 Identifier WorkshopWorkshopFeb 17-19Oracle, AZR. Walls, M. Esteva NSF funded workshop and hackathon on identifier technologies

MidSouth Computational Biology and Bioinformatics (MCBIOS)

WorkshopMar 3-5Memphis, TNJason W.Bindu NandriWe will do a half-day workshop at this event
Get started with CyVerseWebinarMar 9OnlineJason Williams Monthly webinar for new account holders
Tools and Services Workshop - The Ohio State UniversityWorkshopMar 17-18Wooster, OHJason W.Asela WijeratneStandard Tools and Services Workshop
Tools and Services Workshop - Plant Reproduction 2016 ConferenceWorkshopMar 18Tucson, AZEric LyonsRavi PalaniveluThree hour workshop: Intro to CyVerse; Hands-on with Data Store, DE, Atmo; Genome management and analysis with CoGe
Education and Outreach Webinar Series: iPlant's DNA SubwayWebinarMar 23OnlineJason WilliamsMolly PhillipsJason will present on CyVerse EOT and DNA Subway as part of this iDigBio Webinar series
Using Docker to bring tools into the Discovery EnvironmentWebinarMar 25OnlineMartha NarroRoger Barthelson, Upendra Devisetty

registration, materials

30 registrants, 12 participants

Software Carpentry WorkshopWorkshopMar 28-Apr 1Tucson, AZUwe HilgertUwe Hilgert

Sequence of five 1/2-day workshops. >Registration >Material >Eherpad

Curriculum: Shell, git/GitHub, R, Atmosphere
48 applicants, 39 participants

Applicant breakdown:
BIO 29%, MED 25%, Optical Sciences 19%, Space Sciences 6%, Math 6%, Linguistics 6%, Chemistry 4%
Graduate Students 47%, Ugraduates 8%, Postdocs 19%, Staff 13%, Faculty 11%

Genomics in Education Workshop - Southern Illinois University -CarbondaleWorkshopMar 29-30Carbondale, ILJason W.Jane Geisler-LeeStandard Genomics in Education Workshop
Tools and Services Workshop - Southern Illinois University -CarbondaleWorkshopMar 31-Apr 1Carbondale, ILJason W.Jane Geisler-LeeStandard Tools and Services Workshop
Missouri Informatics DayConferenceApril 4-5

Columbia,

Missouri

Nirav M.Trupti JoshiPresentation
CyVerse Training DayWorkshopApr 11thMelbourne, AUJason W.Vicky SchneiderJason will be hosted by EMBL Australia Bioinformatics Director for collaborations and a one-day workshop.
Nectar Research Software Infrastructure WorkshopWorkshopApr12thMelbourne, AUJason. WVicky Schneider/Michelle BarkerJason will present CyVerse as a type of US 'Virtual Laboratory', presenting an overview of the project as well as the development of Atmosphere
Get Started with CyVerseWebinarApril 20OnlineJ. Williams Monthly webinar for new account holders
Focus Forum Webinar: Collaborating with Image Data in BisqueWebinarApril 22OnlineMartha Narro

Kris Kvilekval, Dmitry Fedorov, Ramona Walls

materials

28 registrants, 17 participants

NSF AVATOL PIs meetingWorkshopApril 26-27Arlington, VAR. Walls, N. MerchantJoe MillerNSF hosted meeting for all PIs of the three AVATOL projects to discuss sustainability. RW participated as PI, NM as sustainability expert. (~40 participants)
OBI-ECO evidence meetingWorkshopMay 11-12Baltimore, MDR. WallsMarcus ChibucosJoint meeting of the Evidence Ontology (ECO) and Ontology for Biomedical Investigations (OBI) to discuss modeling evidence. RW is on ECO advisory board.
Big Genomic Data Skills Training for ProfessorsWorkshopMay 24Farmington, CTJ. WilliamsJeff ChuangJason will give a one-day presentation on analyzing genomics data using CyVerse resources
External Scripting for Bisque WorkflowsWebinarMay 25OnlineM. NarroKris Kvilekval, Dmitry Fedorov

materials

17 registrants + 3 staff, 10 community participants

Data Carpentry WorkshopWorkshopMay 26-27Bethesda, MDJ. WilliamsMichelle DunnJason will co-teach a Data Carpentry on the CyVerse co-developed genomics data lessons at NIH
Tools and Services WorkshopWorkshopMay 30-31Irapuato, MXJ. WilliamsRubén AlverezJ. Fonner and J. Williams will lead a Tools and Services workshop at LangeBio/CINVISTAV
Data Carpentry WorkshopWorkshopJun 1-2Irapuato, MXJ. WilliamsRubén AlverezJ. Fonner and J. Williams will lead a Data Carpentry on the CyVerse co-developed genomics data lessons
RNA-Seq for the Next Generation Virtual WorkshopWorkshopJun 6-17OnlineJ. Williams J. Lee and J. Williams will co-teach a virtual workshop on RNA-Seq and DNA Subway with other DNALC instructors.
Software CarpentryWorkshopJun 11-12Tucson, AZU. Hilgert 

2-day workshop preceding the NIH IRACDA Conference

Curriuculum: Shell, git/GitHub, Python
68 applicants; 43 participants
Applicant breakdown
BIO 29%, MED 19%, Space Sciences 14%, Math 12%, Optical Sciences 10%, ENGR 6%, Environmental Sciences 5%
Graduate Students 33%, Ugraduates 30%, Postdocs 20%, Staff 11%, Faculty 5%

IRACDA 2016 ConferenceConferenceJun 12-14Tucson, AZU. Hilgert Presentation: Uwe Hilgert
5th International Conference on Quantitative GeneticsConferenceJun 12-17Madison, WIA. StapletonNatalia de LeonUNCW CyVerse student Danielle Chaung will present a poster on VALIDATE.  Ann will hand out information about CyVerse.
2016 National Academies Special Topics Summer Institute on Quantitative BiologyWorkshopJun 19-24Raleigh, NCJ. Williams Workshop: Cyberinfrastructure in the Classroom - Using Computation Resources to Make Teaching 'High Performance'
BioQUEST Summer InstituteWorkshopJun 20-21Raleigh, NCJ. WilliamsKristin JenkinsJason will give a presentation on DNA Subway and Atmosphere for education and also give a demo Data Carpentry lesson
Getting Started with CyVerseWebinarJun 22OnlineJ. Willams Monthly webinar for new account holders
Plant Biology 2016ConferenceJul 7-13Austin, TXJason W. CyVerse will host a booth and poster
Bioinformatics Open Source Conference (BOSC) 2016ConferenceJul 8-9Orlando, FLJ. Fonner  
ISMBConferenceJul 8-12Orlando, FL

J. Fonner, M. Vaughn,

N. Merchant

 Nirav Merchant and Matt Vaughn presented at the AKES workshop on Education in Bioinformatics (How to Scale Science and People Using the Cloud), and participated in a panel discussion.
Genetics Society of America GSA 2016ConferenceJul 13-17Orlando, FLJ. Lee CyVerse will host a booth and a 2-hour workshop session
Epigenetics: bisulfite sequence analysis and adenosine to inosine modifications (part 1)WebinarJul 22OnlineM. NarroJawon, Roger, Zhenyuan

materials

Registrants: 22, Participants: 10

International Society for Animal GeneticsConferenceJul 23-27Salt Lake City, UTJ. Koltes CyVerse User James Koltes represented CyVerse and presented a poster: (

Bioinformatics resources for animal genomics using CyVerse cyberinfrastructure

) and also featured CyVerse in his oral presentation on EpiDB.
Epigenetics: Bisulfite sequence analysis (part 2), plus results visualizationWebinarJul 29OnlineM. NarroBlake Joyce

materials

Registrants: 13, Participants: 2

International Conference on Biological Ontology & BioCreativeConferenceAug 1-4Corvallis, ORR. Walls, Weijia XuPankaj JaiswalWalls presented several ontology talks in ICBO. Xu presented a paper on text mining for ontology annotaiton in BioCreative. Meeting report.
NIBLSE Kickoff MeetingConferenceAug 4-5Omaha, NEJ. Williams NIBLSE - an NSF-funded RCN works to integrate Bioinformatics into Life Science Education. Jason is a member of a project working group and presented on how CyVerse faculty training can inform efforts to improve faculty development. Several CyVerse exemplar education users (Jim Burnette, UC Riverside; Carlos Goller, NC State - also presented on their use of CyVerse in the classroom).
Get Started with CyVerseWebinarAug 9OnlineJ. Williams Monthly webinar for new account holders

North American Plant Phenotyping Network (NAPPN) Inaugural Convening Event

ConferenceAug 29-31West Lafayette, INR. WallsApril Agee/Carolyn Lawrence-DillMeeting report
Evolinc: Identification and Evolutionary Analysis of Long non-coding RNAWebinarSep 9Online

M. Narro

Andrew Nelson, Upendra Devisetty

Materials
Registrants: 24
Attendees: 5

Get Started with CyVerseWebinarSep 14OnlineJ. Williams Monthly webinar for new account holders
SolGenomics WorkshopWebinarSep 15Online (Davis, CA)J. WilliamsAllen Van DeynzeJason presented a one hour webinar and tutorial set during the conference's concurrent demo track.
BIoSNTR Imaging Informatics SymposiumSymposiumSep 16Sioux Falls, SDM. NarroCarol Lushbough

Virtual presentation and demos - Overview: Bisque Image Analysis Environment. slides; videos are on the Tutorials List page (search for Bisque).

Attendees: 80

Advanced Maui Optical and Space Surveillance Technologies (AMOS) Conference

ConferenceSep 20-23Maui, HIR. Walls Walls will present a paper on the developing Space Object Decision Support System, using CyVerse infrastructure. Meeting report
South African Genetics Society/South African Bioinformatics Society - Joint ConferenceConferenceSep 22-23Durban, ZAJ. WilliamsRobyn JacobJason is being hosted by the South African Sugarcane Research Institute to present on CyVerse to the South African Bioinformatics Congress.
Data Carpentry and CyVerse mini-workshopWorkshopSep 26-29Potchefstroom, ZAJ. WilliamsAnelda van der WaltJason is being hosted by North-West University to instruct the Genomics Data Carpentry Lessons Co-developed by CyVerse as well as mini-workshops on CyVerse platforms.
USDA NIFA Big Data in AgricultureSymposiumOct 10Chicago, ILBlake Joyce Stakeholders meeting for the future of Big Data in Agriculture
SACNAS Pre-conference sessionWorkshopOct 12Long Beach, CAJoslynn LeeRolando Madrid, SACNAS Director of ProgramsJoslynn will lead a one-day workshop with Software / Data Carpentry lessons and a presentation on CyVerse Infrastructure.
Syngenta Comparative GenomicsSymposiumOct 11-14Raleigh, NCBlake JoyceJosh Cohn

Meeting at the Research Triangle with multiple Syngenta sites. Discussion of comparative genomics and applications for crop agriculture.

Slides

Field-Based High Throughput PhenotypingWorkshopOct 17-20Maricopa, AZ

Tyson Swetnam

Blake Joyce

Jeffery White 
Cereal Genomics WorkshopWorkshopOct 18-25Cold Spring Harbor, NYJ. Williams Workshop on Cereal Genomics, will use CyVerse Atmosphere and DE for informatics
5 th International Conference on Biometrics & BiostatisticsConferenceOct 20 - 21Houston, TXUpendra Devisetty Upendra is an invited speaker for the Bioinformatics session of the conference. He is also doing the workshop in the same conference. The presentation and workshop will be focused on "Bringing tools into CyVerse DE". (20)
Microbial FuturePhy WorkshopWorkshopOct 21-23Chicago, ILRamona WallsCarrine BlankWorkshop sponsored by https://futurephy.org/ on how to share, analyze, and reuse microbial phylogenetic data. They are looking for a place to publish matrices, and the Data Commons may serve that need. Also looking to integrate analysis tools. Ramona presented a CyVerse overview and a short talk on how to use ontologies to describe microbial environments. # participants: ~15
Bio-medical Data ScienceHackathonOct 24-26Cold Spring Harbor, NYUpendra Devisetty Upendra has been accepted to attend the Biological Data Science Hackathon at CSHL. He will be working on the following workflows
  •  Local Assembly for Structural Variant Analysis
  •  Building Population and Individual Scale Graph Genomes!
  •  Ultrafast Genomic Mapping from Public Datasets; speeding up whole chromosome, transcriptome, or gene specific mapping with most aligners.
Biological Data ScienceConferenceOct 26-29Cold Spring Harbor, NYJ. Williams, U. Devisetty This meeting was co-developed by iPlant/CyVerse, and abstracts submissions are in progress from DNALC; additional CyVerse-related abstracts are welcome. Upendra is giving a poster on "Evolinc—A computational pipeline for comparative genomic and transcriptomic analyses of long non-coding RNAs from large RNA-Seq datasets"
Software/Data Carpentry WorkshopWorkshopNov. 5-6University of ArizonaUwe HilgertUwe Hilgert

Curriculum: Shell, git/GitHub, R

91 applicants; 46 participants
Applicant breakdown
BIO 30%, MIS 26%, MED 16%, ENGR 6%, GEO 5%, CHEM & Linguistics 4% each
Graduate Students 60%, Staff 10%, Ugraduates 10%, Postdocs 9%, Faculty 10%

PIDapoloozaConferenceNov. 9-10Reykjavik, IcelandR. Walls  
PLOTCONConferenceNov 15-18New York City, NYBlake Joyce 

Report

Blake will give a presentation entitled "Always Evolving: a tale of genomic visualization" (200)

TDWG2016 (Biodiversity Information Standards)Conference + HackathonDec. 5-10La Fortuna, Costa RicaR. Walls  
Ramping up compute through CyVerse + RWorkshopDec. 8thUniversity of Arizona Ecology and Evolutionary Biology DepartmentBlake JoyceElizabeth Miller

Report

Blake will give a presentation to the EEB department (40% grads, 40% postdocs, 20% staff/visiting scholars). Additionally, discussions about interactive visualization and scaled compute community needs will be held.

EMBL-ABR workshop on Open Source and Software Development Best Practice

WorkshopDec. 8thMelbourne, AustraliaJ. Williams Jason co-presented workshop with ELIXIR CTO Rafael Jimenez on Software Development best Practice in Bioinformatics, including resources available through CyVerse (12)

EMBL-ABR Open and Scalable Training workshop

WorkshopDec. 9thMelbourne, AustraliaJ. Williams Jason co-presented on training best practices with EMBL-ABR Dept. Director Vicky Schneider, ELIXIR CTO Rafael Jimenez in training for bioinformatics (10)
Get Started with CyVerseWebinarDec 21OnlineJ. Williams Monthly webinar for new account holders (2)

SI Team professional development 

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