Data Carpentry

This wiki supports the Data Carpentry Workshop to be held at the University of Florida at iDigBio September 29-30, 2014. It is the first in a series of four biodiversity informatics workshops planned in the upcoming year (2014-2015).

Digitization Training Workshops Wiki Home

Planning Team

• François Michonneau (FLMNH - iDigBio), Katja Seltmann (TTD-TCN, MNH), Matt Collins (ACIS - iDigBio), Dan Stoner (ACIS - iDigBio), Deborah Paul (FSU - iDigBio), Tracy K. Teal (BEACON), Pam Soltis (FLMNH - iDigBio PI), Derek Masaki (USGS), Shari Ellis (iDigBio), Kevin Love (iDigBio), Mike Smorul (SESYNC), Juliet Pulliam (UF), Ming Tang (Tommy) (UF), and assistance from Nirav Merchant at iPlant.

Workshop Evaluation

• link to pre-workshop survey
• link here at end of workshop

Software Installation Details

Data Carpentry software installation instructions

We will be using Adobe Connect extensively in this workshop. Please perform the systems test using the link below. Also, you will also need to install the Adobe Connect Add In to participate in the workshop.

• Adobe Connect Systems Test

Agenda

• pre-workshop meeting (online) http://idigbio.adobeconnect.com/e4r9cm91cjg/event/login.html
  • You must RSVP that the required software is installed, prior to the workshop.
    • Instructors are available to help
  • Questions?
• pre-workshop meeting / dinner day before
  • All welcome. Place/time TBA.

Course Overview - Day 1
8:30-9:00	Introductions / Overview / Why Data Carpentry? / How to organize data projects	All
9:00-10:00	Better use of spreadsheets, part I	Tracy Teal
10:00-10:30	Break
10:30-12:00	Better use of spreadsheets part II	Tracy Teal
12:00-1:30	Lunch (with OpenRefine Demo)	Deb Paul
1:30-3:00	SQL Introduction	Matt Collins
3:00-3:30	Break
3:30-5:00	SQL part II	Matt Collins
5:00-5:30	Review / Wrap up for tomorrow
Course Overview - Day 2
8:30-10:00	Introduction to the shell	Tracy Teal
10:00-10:30	Break
10:30-12:00	Introduction to R	François Michonneau
12:00-1:30	Lunch (Demo)
1:30-3:00	Manipulating and plotting data in R	François Michonneau
3:00-3:30	Break
3:30-4:30	Getting data in and out of R: How to integrate R in your workflow	François Michonneau
4:30-5:00	Sharing your data and your results: RMarkdown and Figshare	François Michonneau
5:00-5:30	Review / Wrap up / Evaluation and Feedback

Future plan: Scaling it up: Demo using the iPlant Discovery Environment (DE)

Logistics

• Logistics
• Hotel (for the out-of-towners)
• Where to find food
• Workshop Calendar Announcement

Remote Participation

Remote participation will be provided via Adobe Connect: [room URL to be decided]

• Remote can join those present for notes in (Google Doc) or (MoPad)?

Presentation Documents and Links

• links to any presentations (like power points) here.
• GitHub repository for Data Carpentry Workshop at iDigBio
• EtherPad Data Carpentry at iDigBio workshop notes

Workshop Recordings

Day 1

• [8:30am-10:00am]
• [10:30am-12:00pm]
• [1:00pm-3:00pm]
• [3:30-6pm]

Day2

• [8:30am-10:00am]
• [10:30am-12:00pm]
• [1:00pm-3:00pm]
• [3:30-6pm]

Data Carpentry Resources and Links

• Inaugural Data Carpentry Workshop by Tracy K. Teal
• Our First Data Carpentry Workshop by Karen Cranston
• Tales from the First Data Carpentry Workshop by Deb Paul
• Data Carpentry Materials on GitHub
• Ten Simple Rules for the Care and Feeding of Scientific Data. Goodman et al
• Code and Data for the Social Sciences: A Practitioner's Guide. Matthew Gentzkow, Jesse M. Shapiro Chicago Booth and NBER March 10,2014
• Nine simple ways to make it easier to (re)use your data. White et al.