[ngs] Read Assembly Scavenger Hunt Challenge

[Joshua Herr]

Hello everyone,

We have constructed a little challenge for you.  You should work in groups
to solve an assembly puzzle which will give you a clue (scavenger hunt
style) to a hidden prize.

We're providing you with reads (in FASTA format) from our sequencing run on
the new POWERSEQ3000 sequencer.  You'll need to use an assembly program
(for example: MINIA or VELVET) to assemble the data.  You can check the
optimal k-mer size for the assembly process if you wish.  You may have to
error correct for sequencing read errors, indels, etc, based on your
assembly consensus.  Once you have a assembly which you feel confident with you
should convert your sequences to text instructions
<http://text2dna.googlecode.com/svn/trunk/>(use
this script) <http://text2dna.googlecode.com/svn/trunk/> which will direct
you to find the prize <http://text2dna.googlecode.com/svn/trunk/>.

We suggest working in groups using your EC2 instances.  You should start by
making sure your instances are running, and you have all the tools
installed that you will need for the challenge.

Michael has uploaded the read files to this link:
http://de.iplantcollaborative.org/dl/16fc660d-ddde-4272-a1c1-d3237e6f9b79.

We'll be available to help you during your assembly.

Grab us for help ~ Michael, Rayan, Josh, etc...



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*____________________________________________________**Joshua R. Herr, PhD

321 Forest Resources Building
The Schatz Center for Tree Molecular Genetics
Department Of Ecosystem Science & Management
The Pennsylvania State University
University Park, PA, 16802, USA

email: jherr at psu.edu
<https://webmail.psu.edu/webmail/retrieve.cgi?mailbox=inbox&start_num=0&limit=50&sort=1&display=4&timestamp=20110921151220&mid=4E5B848D8AE3784BA2028DE7B74BD052180A7140%40CAS%2dEXCH%2d03%2eAG%2ePSU%2eEDU#>
-- joshua.r.herr at gmail.com
<https://webmail.psu.edu/webmail/retrieve.cgi?mailbox=inbox&start_num=0&limit=50&sort=1&display=4&timestamp=20110921151220&mid=4E5B848D8AE3784BA2028DE7B74BD052180A7140%40CAS%2dEXCH%2d03%2eAG%2ePSU%2eEDU#>
 <https://webmail.psu.edu/webmail/retrieve.cgi?mailbox=inbox&start_num=0&limit=50&sort=1&display=4&timestamp=20110921151220&mid=4E5B848D8AE3784BA2028DE7B74BD052180A7140%40CAS%2dEXCH%2d03%2eAG%2ePSU%2eEDU#>phone:
503.880.3131 (cellular) -- 814.865.4440 (office)
website: http://joshuaherr.com**______________________________________________________*
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