Cbcb - User contributions [en]

Cbcb:SummerInternships

2009-05-27T16:05:19Z

Carlk:

1. Determine the the isoforms for a gene using short read data.

2. Use short-read data to find small structural variants.

3. Analyze the de Bruijn graph of (idealized?) short-read data to figure out the optimal mate pair separation to disambiguate the assembly, to find structural variants within metagenomic data, and to compare metagenomic environments.

Main Page

2009-05-27T15:21:22Z

Carlk: /* Projects */

== Seminars ==
* [http://www.cbcb.umd.edu/seminars Regular CBCB seminars (during academic year)] 
* [[Cbcb:Works-In-Progress]] - Works in progress seminar schedule (Summer 2008) 
* [[short_read_sequencing|Short read sequencing Meeting]] (Fridays at 3pm)

== Projects ==

* [[Project:Pop-Lab|Pop-Lab]]
* [[Project:Kingsford-Group|Kingsford Group]]
* [[Project:Cloud-Computing|Cloud Computing]]
* [[Project:SummerInternships|Summer Internship Projects]]

== People ==

* [[User:ayres|Daniel Ayres]]
* [[User:pknut777|Adam Bazinet]]
* [[User:amp|Adam M Phillipy]]
* [[User:adelcher|Arthur L. Delcher]]
* [[User:carlk|Carl Kinsford]]
* [[User:dpuiu|Daniela Puiu]]
* [[User:dsommer|Dan Sommer]]
* [[User:gpertea|Geo Pertea]]
* [[User:jeallen|Jonathan Edward All]]
* [[User:ayanbule|Kunmi Ayanbule]]
* [[User:mschatz|Michael Schatz]]
* [[User:mpertea|Mihaela Pertea]]
* [[User:mpop|Mihai Pop]]
* [[User:nelsayed|Najib El-Sayed]]
* [[User:nedwards|Nathan Edwards]]
* [[User:niranjan|Niranjan Nagarajan]]
* [[User:saket|Saket Navlakha]]
* [[User:angiuoli|Samuel V Angluoli]]
* [[User:salzberg|Steven Salzberg]]
* [[User:whitej|James Robert White]]

== Getting started ==
If you have just received a new umiacs account through CBCB, follow the instructions on this page to get the basic information you'll need to start working: 
*[[Getting Started in CBCB]]

Main Page

2009-05-27T15:21:01Z

Carlk: /* Projects */

== Seminars ==
* [http://www.cbcb.umd.edu/seminars Regular CBCB seminars (during academic year)] 
* [[Cbcb:Works-In-Progress]] - Works in progress seminar schedule (Summer 2008) 
* [[short_read_sequencing|Short read sequencing Meeting]] (Fridays at 3pm)

== Projects ==

* [[Project:Pop-Lab|Pop-Lab]]
* [[Project:Kingsford-Group|Kingsford Group]]
* [[Project:Cloud-Computing|Cloud Computing]]
* [[Project:SummerInternships]]

== People ==

* [[User:ayres|Daniel Ayres]]
* [[User:pknut777|Adam Bazinet]]
* [[User:amp|Adam M Phillipy]]
* [[User:adelcher|Arthur L. Delcher]]
* [[User:carlk|Carl Kinsford]]
* [[User:dpuiu|Daniela Puiu]]
* [[User:dsommer|Dan Sommer]]
* [[User:gpertea|Geo Pertea]]
* [[User:jeallen|Jonathan Edward All]]
* [[User:ayanbule|Kunmi Ayanbule]]
* [[User:mschatz|Michael Schatz]]
* [[User:mpertea|Mihaela Pertea]]
* [[User:mpop|Mihai Pop]]
* [[User:nelsayed|Najib El-Sayed]]
* [[User:nedwards|Nathan Edwards]]
* [[User:niranjan|Niranjan Nagarajan]]
* [[User:saket|Saket Navlakha]]
* [[User:angiuoli|Samuel V Angluoli]]
* [[User:salzberg|Steven Salzberg]]
* [[User:whitej|James Robert White]]

== Getting started ==
If you have just received a new umiacs account through CBCB, follow the instructions on this page to get the basic information you'll need to start working: 
*[[Getting Started in CBCB]]

Cbcb:Works-In-Progress

2009-05-27T15:18:19Z

Carlk:

= CBCB Works in Progress seminars =

== Summer 2009 ==

'''When:''' Mondays @ 2pm 
'''Where:''' Main CBCB conference room 
 

'''Schedule''' 
{|
|June 1|| Arthur Brady || slides
|-
|June 8|| David Kelley || slides
|-
|June 15|| Guillaume Marcais || slides
|-
|June 22|| Sergey Koren || slides
|-
|June 29|| Cole Trapnell || slides
|-
|July 6|| Sam Angiuoli || slides
|-
|July 13|| Mohammad Ghodsi || slides
|-
|July 20|| Megan Smedinghoff || slides
|-
|July 26|| James White || slides
|-
|Aug 3|| Saket Navlakha || slides
|-
|Aug 10|| Bo Liu || slides
|-
|Aug 17|| Dan Sommer || slides
|-
|}

== Summer 2008 ==

'''When:''' Mondays @ 1:30pm 
'''Where:''' Main CBCB conference room 
 

'''Schedule''' 
{|
|6/9 || Mike Schatz || slides
|-
|6/16 || Cole Trapnell || slides
|-
|6/23 || Ben Langmead || slides
|-
|6/30 || Sam Huang || slides
|-
|7/14 || Adam Phillippy || slides
|-
|7/21 || Ginger Houston-Ludlam || slides
|-
|-
|7/28 || Canceled || slides
|-
|-
|8/4 || Saket Navlakha || slides
|-
|8/11 || ''Canceled'' || slides
|-
|8/18 || Bo Liu || slides
|-
|8/25 || Gustavo Cerqueira || slides
|-
|}

Cbcb:Works-In-Progress

2009-05-27T15:17:53Z

Carlk:

= CBCB Works in Progress seminars =

== Summer 2009 ==

'''When:''' Mondays @ 2pm 
'''Where:''' Main CBCB conference room 
 

'''Schedule''' 
{|
|June 1|| Arthur Brady || slides
|-
|June 8|| David Kelley || slides
|-
|June 15|| Guillaume Marcais || slides
|-
|June 22|| Sergey Koren || slides
|-
|June 29|| Cole Trapnell || slides
|-
|July 6|| Sam Angiuoli || slides
|-
|July 13|| Mohammad Ghodsi || slides
|-
|July 20|| Megan Smedinghoff || slides
|-
|July 26|| James White || slides
|-
|Aug 3|| Saket Navlakha || slides
|-
|Aug 10|| Bo Liu || slides
|-
|Aug 17|| Dan Sommer || slides
|-
|}

= Summer 2008 =

'''When:''' Mondays @ 1:30pm 
'''Where:''' Main CBCB conference room 
 

'''Schedule''' 
{|
|6/9 || Mike Schatz || slides
|-
|6/16 || Cole Trapnell || slides
|-
|6/23 || Ben Langmead || slides
|-
|6/30 || Sam Huang || slides
|-
|7/14 || Adam Phillippy || slides
|-
|7/21 || Ginger Houston-Ludlam || slides
|-
|-
|7/28 || Canceled || slides
|-
|-
|8/4 || Saket Navlakha || slides
|-
|8/11 || ''Canceled'' || slides
|-
|8/18 || Bo Liu || slides
|-
|8/25 || Gustavo Cerqueira || slides
|-
|}

Cbcb:Works-In-Progress

2009-05-27T15:17:20Z

Carlk: /* CBCB Works in Progress seminars */

== CBCB Works in Progress seminars ==

'''When:''' Mondays @ 2pm 
'''Where:''' Main CBCB conference room 
 

'''Schedule''' 
{|
|June 1|| Arthur Brady || slides
|-
|June 8|| David Kelley || slides
|-
|June 15|| Guillaume Marcais || slides
|-
|June 22|| Sergey Koren || slides
|-
|June 29|| Cole Trapnell || slides
|-
|July 6|| Sam Angiuoli || slides
|-
|July 13|| Mohammad Ghodsi || slides
|-
|July 20|| Megan Smedinghoff || slides
|-
|July 26|| James White || slides
|-
|Aug 3|| Saket Navlakha || slides
|-
|Aug 10|| Bo Liu || slides
|-
|Aug 17|| Dan Sommer || slides
|-
|}

= Summer 2008 =

'''When:''' Mondays @ 1:30pm 
'''Where:''' Main CBCB conference room 
 

'''Schedule''' 
{|
|6/9 || Mike Schatz || slides
|-
|6/16 || Cole Trapnell || slides
|-
|6/23 || Ben Langmead || slides
|-
|6/30 || Sam Huang || slides
|-
|7/14 || Adam Phillippy || slides
|-
|7/21 || Ginger Houston-Ludlam || slides
|-
|-
|7/28 || Canceled || slides
|-
|-
|8/4 || Saket Navlakha || slides
|-
|8/11 || ''Canceled'' || slides
|-
|8/18 || Bo Liu || slides
|-
|8/25 || Gustavo Cerqueira || slides
|-
|}

Main Page

2009-01-29T16:38:22Z

Carlk: /* Projects */

== Seminars ==
* [http://www.cbcb.umd.edu/seminars Regular CBCB seminars (during academic year)] 
* [[Cbcb:Works-In-Progress]] - Works in progress seminar schedule (Summer 2008) 
* [[short_read_sequencing|Short read sequencing Meeting]] (Fridays at 3pm)

== Projects ==

* [[Project:Pop-Lab|Pop-Lab]]
* [[Project:Kingsford-Group|Kingsford Group]]

== People ==

* [[User:pknut777|Adam Lee Bazinet]]
* [[User:amp|Adam M Phillipy]]
* [[User:adelcher|Arthur L. Delcher]]
* [[User:carlk|Carl Kinsford]]
* [[User:dpuiu|Daniela Puiu]]
* [[User:dsommer|Dan Sommer]]
* [[User:gpertea|Geo Pertea]]
* [[User:jeallen|Jonathan Edward All]]
* [[User:ayanbule|Kunmi Ayanbule]]
* [[User:conte|Matthew Conte]]
* [[User:mschatz|Michael Schatz]]
* [[User:mpertea|Mihaela Pertea]]
* [[User:mpop|Mihai Pop]]
* [[User:nelsayed|Najib El-Sayed]]
* [[User:nedwards|Nathan Edwards]]
* [[User:angiuoli|Samuel V Angluoli]]
* [[User:salzberg|Steven Salzberg]]
* [[User:whitej|James Robert White]]

== Getting started ==
* [[Cbcb:Resources]] (VERY) Useful information on CBCB resources 

* [http://www.mediawiki.org/wiki/Help:Configuration_settings Configuration settings list]
* [http://www.mediawiki.org/wiki/Help:FAQ MediaWiki FAQ]
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