User contributions for Tgibbons

10 August 2010

• 01:1701:17, 10 August 2010 diff hist +11‎ User:Tgibbons:Project-Ideas ‎ →‎Potential Research Projects Inspired by ''Microbial Inhabitants of Humans'': Reformatted the headers for each project
• 01:1501:15, 10 August 2010 diff hist +55‎ User:Tgibbons ‎ Added link to my project ideas page current

9 August 2010

• 17:4717:47, 9 August 2010 diff hist +1,225‎ User:Tgibbons:Project-Ideas ‎ →‎(pre)Binning to improve metagenomic assembly: Added more to the prebinning entry
• 17:3217:32, 9 August 2010 diff hist +2,504‎ User:Tgibbons:Project-Ideas ‎ →‎Other Potential Research Projects: Added a bunch of stuff about the prebinning project with Arthur
• 16:0816:08, 9 August 2010 diff hist +207‎ User:Tgibbons:Project-Ideas ‎ →‎Other Potential Research Projects
• 15:5515:55, 9 August 2010 diff hist +2‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Other Potential Research Projects
• 15:5415:54, 9 August 2010 diff hist +2‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Possible Research Projects Inspired by ''Microbial Inhabitants of Humans''
• 15:5415:54, 9 August 2010 diff hist −1,061‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Possible Research Projects Inspired by ''Microbial Inhabitants of Humans'': Replaced with a link to a dedicated page I created for my project ideas
• 15:5315:53, 9 August 2010 diff hist −1,039‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Other Potential Research Projects: Replaced with link to new dedicated page for my project ideas
• 15:5115:51, 9 August 2010 diff hist +2,591‎ N User:Tgibbons:Project-Ideas ‎ Moved previous ideas from my progress report
• 15:2915:29, 9 August 2010 diff hist +1,226‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎August 13, 2010: Created a new entry with a subsection for my project ideas

27 July 2010

• 19:3419:34, 27 July 2010 diff hist +288‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎July 23, 2010: Addedentry for week ending July 30, 2010, and a section for metagenomics papers I should read when I'm done with this book

22 July 2010

• 18:2318:23, 22 July 2010 diff hist +738‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Potential Research Projects Inspired by ''Microbial Inhabitants of Humans''
• 17:1817:18, 22 July 2010 diff hist +528‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎July 23, 2010: Started section to brainstorm research projects I'd like to look into
• 04:1604:16, 22 July 2010 diff hist +206‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎July 23, 2010
• 03:1903:19, 22 July 2010 diff hist +59‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎July 23, 2010
• 03:0803:08, 22 July 2010 diff hist +1,729‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎July 23, 2010: Created entry

4 June 2010

• 18:5818:58, 4 June 2010 diff hist +98‎ m Communal Software ‎ →‎Introduction
• 18:5618:56, 4 June 2010 diff hist +2,498‎ N Communal Software ‎ Created page
• 18:1018:10, 4 June 2010 diff hist +23‎ Main Page ‎ →‎Getting started: Created and linked to communal software page

26 May 2010

• 21:5221:52, 26 May 2010 diff hist +57‎ m Cbcb:Pop-Lab:16S-pipeline 16S analysis pipeline (for Gates project) ‎ →‎Directory structure
• 21:3021:30, 26 May 2010 diff hist −54‎ Cbcb:Pop-Lab:16S-pipeline 16S analysis pipeline (for Gates project) ‎ →‎Directory structure: Fixed some indeces, but the file structure appears to already be slightly out of date.

5 April 2010

• 15:3215:32, 5 April 2010 diff hist +152‎ Main Page ‎ →‎Getting started: Added links to the recently created resources pages

29 March 2010

• 02:3702:37, 29 March 2010 diff hist +818‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎April 2, 2010: Added entry for week ending April 2
• 02:3002:30, 29 March 2010 diff hist +795‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎March 26, 2010: Finished my thoughts for the week

26 March 2010

• 20:2520:25, 26 March 2010 diff hist +932‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎February 19, 2010: created an entry for March 26

19 February 2010

• 19:5219:52, 19 February 2010 diff hist +99‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎February 19, 2010
• 17:4617:46, 19 February 2010 diff hist +793‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎February 5, 2010: Created entries for the next two weeks

3 February 2010

• 02:0902:09, 3 February 2010 diff hist +1,478‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Biomarker Assembly: Finished entry

2 February 2010

• 23:3723:37, 2 February 2010 diff hist +1,438‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎February 5, 2010: Part two. Still have more to write.
• 23:1923:19, 2 February 2010 diff hist +1,160‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎UMIACS Resources: Creating a new entry for this week. Saving my work half way through.
• 23:0123:01, 2 February 2010 diff hist +218‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Other Observations About the Assemblies: Noted a blunder

26 January 2010

• 13:4513:45, 26 January 2010 diff hist 0‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added data for the 16 million read assembly
• 05:4805:48, 26 January 2010 diff hist +5‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis
• 05:4305:43, 26 January 2010 diff hist 0‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Tweaked the mem model for the overlapper
• 05:4205:42, 26 January 2010 diff hist +505‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Continued tweeking the tables and adding more data
• 04:4404:44, 26 January 2010 diff hist +178‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added more data and models for the minimus assemblies on walnut

25 January 2010

• 22:4422:44, 25 January 2010 diff hist +2‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added overlapper performance for 8M reads on walnut
• 18:4018:40, 25 January 2010 diff hist +1‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added tigger performance for 2M reads on walnut
• 18:1518:15, 25 January 2010 diff hist +3‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added overlapper performance for 4M reads on walnut
• 17:2717:27, 25 January 2010 diff hist +705‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added performance table for minimus on walnut
• 16:5916:59, 25 January 2010 diff hist −2,107‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Deleted all the info that I'd compiled into the minimus performance table
• 16:0616:06, 25 January 2010 diff hist +2‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎UMIACS Resources: made this a sub-heading under this week's entry
• 16:0516:05, 25 January 2010 diff hist +691‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added an updated, accurate subset of the resources page
• 00:1000:10, 25 January 2010 diff hist +26‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Replaced carats with proper superscripts
• 00:0600:06, 25 January 2010 diff hist +147‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added better models derived using openoffice

24 January 2010

• 18:5418:54, 24 January 2010 diff hist +31‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Corrected some statements I'd made based on faulty late-night math
• 18:1318:13, 24 January 2010 diff hist 0‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis
• 18:1318:13, 24 January 2010 diff hist −101‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added data for the 8 million read assembly
• 18:1018:10, 24 January 2010 diff hist +105‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added data for the 8 million read assembly
• 18:0518:05, 24 January 2010 diff hist +1‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010
• 18:0518:05, 24 January 2010 diff hist +893‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis
• 18:0218:02, 24 January 2010 diff hist −734‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Run Time Analysis
• 18:0218:02, 24 January 2010 diff hist +251‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis: Added a lousy model for the run time of the minimus contigger
• 17:5217:52, 24 January 2010 diff hist +38‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Performance Analysis
• 17:5117:51, 24 January 2010 diff hist +38‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added informative sub-heading. I'm thinking about making that a thing this year.
• 17:5017:50, 24 January 2010 diff hist +1,036‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Finally added the table
• 17:1617:16, 24 January 2010 diff hist +1,508‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 22, 2010: fin.
• 16:3916:39, 24 January 2010 diff hist +8‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Documentation
• 16:1216:12, 24 January 2010 diff hist +3,857‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 15, 2010: Added a post for Jan 22. Not done yet, but need food badly or will die. bbl
• 15:3815:38, 24 January 2010 diff hist +68‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added data for the 4 million & million read runs
• 07:0907:09, 24 January 2010 diff hist +125‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added moar values
• 06:4906:49, 24 January 2010 diff hist +230‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Fixed the models I was using to estimate minimus run time
• 06:3606:36, 24 January 2010 diff hist +735‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added some general notes about the minimus assemblies
• 06:1806:18, 24 January 2010 diff hist +11‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010
• 06:0906:09, 24 January 2010 diff hist +120‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Partially updated with information about the 20 million read minimus assembly

23 January 2010

• 23:2323:23, 23 January 2010 diff hist +799‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added more data, plus a couple of questionable models for the minimus run time
• 22:0822:08, 23 January 2010 diff hist −14‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Updated some values
• 22:0122:01, 23 January 2010 diff hist +20‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Updated some values
• 21:2321:23, 23 January 2010 diff hist +634‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 29, 2010: Added more data. I really need to put this in a table.
• 20:5720:57, 23 January 2010 diff hist +394‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎January 15, 2010: Started an entry for week ending Jan 29, 2010

22 January 2010

• 23:1323:13, 22 January 2010 diff hist −2‎ m Cbcb:Pop-Lab:How do I run the new Bambus ‎No edit summary current

21 January 2010

• 02:4302:43, 21 January 2010 diff hist 0‎ m Cbcb:Pop-Lab:How do I run the new Bambus ‎No edit summary

20 January 2010

• 21:2421:24, 20 January 2010 diff hist 0‎ m Cbcb:Pop-Lab:How do I run the new Bambus ‎No edit summary
• 16:4316:43, 20 January 2010 diff hist −51‎ Cbcb:Pop-Lab:How-to ‎ Redirected the "getting started in CBCB" link to the page I created current
• 16:3816:38, 20 January 2010 diff hist −1‎ m Cbcb:Pop-Lab:Challenges ‎No edit summary current

19 January 2010

• 17:1317:13, 19 January 2010 diff hist +492‎ Getting Started in CBCB ‎ →‎Configuring Your Home Directory and Shell: Added config instructions for .bash_profile
• 16:4816:48, 19 January 2010 diff hist +803‎ Getting Started in CBCB ‎ →‎Configuring Your Home Directory and Shell: Replaced my email address with actual instructions for configuring a fresh bashrc file

14 January 2010

• 19:4219:42, 14 January 2010 diff hist −10‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Documentation
• 18:3418:34, 14 January 2010 diff hist +93‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Documentation: Added some commands for running minimus
• 18:0718:07, 14 January 2010 diff hist +71‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Comparative Network Analysis pt. 2

13 January 2010

• 22:5722:57, 13 January 2010 diff hist +1,357‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Comparative Network Analysis pt. 2: Added some thoughts on my network alignment project

12 January 2010

• 16:5116:51, 12 January 2010 diff hist +4‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Documentation
• 16:5016:50, 12 January 2010 diff hist +25‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Documentation
• 16:4916:49, 12 January 2010 diff hist +1,136‎ Cbcb:Pop-Lab:Ted-Report ‎ →‎Minimus Documentation
• 16:1916:19, 12 January 2010 diff hist 0‎ User:Tgibbons ‎No edit summary
• 16:1616:16, 12 January 2010 diff hist +34‎ Main Page ‎ →‎People: Added mahself to the list. Note: We should really choose a convention for ordering this thing.
• 16:1416:14, 12 January 2010 diff hist +3‎ m User:Tgibbons ‎No edit summary
• 16:1316:13, 12 January 2010 diff hist +1‎ User:Tgibbons ‎No edit summary
• 16:1316:13, 12 January 2010 diff hist +49‎ N User:Tgibbons ‎No edit summary
• 16:0016:00, 12 January 2010 diff hist +38‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Comparative Network Analysis pt. 2
• 16:0016:00, 12 January 2010 diff hist −25,435‎ Cbcb:Pop-Lab:Ted-Report ‎ Restructured the page to link to entries from previous years rather than storing them all on one page
• 15:5115:51, 12 January 2010 diff hist +25,500‎ N Cbcb:Pop-Lab:Ted-Report-2009 ‎ Moved my 2009 progress report entries to a new page to keep things from getting too cluttered current
• 15:4915:49, 12 January 2010 diff hist +177‎ N Cbcb:Pop-Lab:Ted-Report-2010 ‎ Starting a new progress report for 2010 and creating the first entry for week ending January 15 current
• 15:4415:44, 12 January 2010 diff hist +2‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎Comparative Network Analysis pt. 2
• 15:4415:44, 12 January 2010 diff hist 0‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎January 16, 2010
• 15:4315:43, 12 January 2010 diff hist +177‎ Cbcb:Pop-Lab:Ted-Report ‎ Added an entry for week ending January 16, 2010

24 November 2009

• 21:2421:24, 24 November 2009 diff hist −8‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎November 6, 2009
• 21:2321:23, 24 November 2009 diff hist −1‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎NCBI Info Summary for Mycobacterium Genome Sequences:
• 21:2321:23, 24 November 2009 diff hist +15‎ m Cbcb:Pop-Lab:Ted-Report ‎ →‎October 30, 2009