User contributions for Kfifer

31 October 2008

• 15:4115:41, 31 October 2008 diff hist +1 User:Kfifer No edit summary current
• 15:4015:40, 31 October 2008 diff hist 0 User:Kfifer No edit summary
• 15:3515:35, 31 October 2008 diff hist −25 User:Kfifer No edit summary
• 14:3114:31, 31 October 2008 diff hist +93 User:Kfifer No edit summary
• 14:3014:30, 31 October 2008 diff hist +17 User:Kfifer No edit summary
• 14:2914:29, 31 October 2008 diff hist +18 User:Kfifer No edit summary
• 14:2414:24, 31 October 2008 diff hist +51 User:Kfifer No edit summary
• 14:2314:23, 31 October 2008 diff hist 0 User:Kfifer No edit summary
• 13:5313:53, 31 October 2008 diff hist +75 User:Kfifer No edit summary
• 13:4913:49, 31 October 2008 diff hist −108 User:Kfifer No edit summary
• 13:4813:48, 31 October 2008 diff hist +656 User:Kfifer No edit summary

3 May 2007

• 08:1908:19, 3 May 2007 diff hist +1,235 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-5-3 No edit summary current
• 08:0508:05, 3 May 2007 diff hist +14,113 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-5-3 New page: <syntax type='python'> from Bio import SeqIO from Bio.Blast import NCBIWWW from Bio.EUtils import DBIdsClient import xml.dom.minidom from xml.dom.minidom import parse, parseString from t...

1 May 2007

• 10:4410:44, 1 May 2007 diff hist 0 User:Kfifer →Biophysics 101
• 10:4210:42, 1 May 2007 diff hist +149 User:Kfifer →Biophysics 101
• 10:3810:38, 1 May 2007 diff hist +9 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-5-1 No edit summary
• 10:3710:37, 1 May 2007 diff hist +578 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-5-1 New page: So the next step of the project is combining everything. As I see it, there are a few separate pipelines: * Seq->blast->gene names (this much is Zach) ->polyphan (Mike needs to do this) o...
• 10:3310:33, 1 May 2007 diff hist −1 User:Kfifer →Biophysics 101

24 April 2007

• 07:0207:02, 24 April 2007 diff hist +616 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-24 No edit summary current
• 06:4906:49, 24 April 2007 diff hist +520 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-24 New page: * we're going to pull the genbank file down in its entirety and parse for relavant features using the code i wrote last time. (we gave up the battle to get just a piece of the genbank file...

19 April 2007

• 06:0006:00, 19 April 2007 diff hist −13 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-19 No edit summary current
• 05:5905:59, 19 April 2007 diff hist 0 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-19 No edit summary
• 05:5905:59, 19 April 2007 diff hist +33 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-19 No edit summary
• 05:5705:57, 19 April 2007 diff hist +3,897 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-19 New page: This script does a regular BLAST lookup and parses out the top human hit and relevant info (hit to, hit from, hit id, hit def, hit seq, etc). The next step will be to get the relevant par...

17 April 2007

• 03:2603:26, 17 April 2007 diff hist +274 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-17 →Project Progress current

16 April 2007

• 04:5704:57, 16 April 2007 diff hist +209 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-17 →Project Progress
• 04:5504:55, 16 April 2007 diff hist +4,519 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-15 New page: This version of the full script pickles the output to a file in addition to printing. Below is code to read in and unpickle what was written (and then print that. A modified version of th... current
• 03:1203:12, 16 April 2007 diff hist +2 IGEM:Harvard/2006/Container Design 4/Python Code/Pickle Scripts No edit summary current
• 03:1103:11, 16 April 2007 diff hist +1 User:Kfifer →Summer 2006
• 03:1103:11, 16 April 2007 diff hist 0 User:Kfifer →Summer 2006
• 03:0803:08, 16 April 2007 diff hist +25 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-17 →Project Plan
• 02:3102:31, 16 April 2007 diff hist +70 Harvard:Biophysics 101/2007/04/12 No edit summary
• 02:3102:31, 16 April 2007 diff hist +138 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-17 No edit summary

15 April 2007

• 19:5119:51, 15 April 2007 diff hist +80 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-17 →Project Plan
• 19:5019:50, 15 April 2007 diff hist +860 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-17 New page: == Project Plan == * My work thus far has focused both on general project management and also on part of the basic script - I worked on the part that went from sequence to snp number with...
• 19:4019:40, 15 April 2007 diff hist +5,247 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-4-5 New page: == The Project Thus Far == Our project consists of a number of parts. Its central feature takes a DNA sequence and uses BLAST/SNP to determine whether or not the sequence has any single ... current

3 April 2007

• 01:1101:11, 3 April 2007 diff hist +518 Harvard:Biophysics 101/2007/Notebook:Xiaodi Wu/2007-3-20 →Progress thus far current
• 00:3100:31, 3 April 2007 diff hist +12 User:Kfifer No edit summary
• 00:2700:27, 3 April 2007 diff hist +8 Harvard:Biophysics 101/2007/Notebook:Xiaodi Wu/2007-3-20 →Progress thus far
• 00:2700:27, 3 April 2007 diff hist +342 Harvard:Biophysics 101/2007/Notebook:Xiaodi Wu/2007-3-20 No edit summary

22 March 2007

• 12:5112:51, 22 March 2007 diff hist −13 Harvard:Biophysics 101/2007/Project →Overview
• 12:5012:50, 22 March 2007 diff hist +756 Harvard:Biophysics 101/2007/Project →Project Sections
• 11:5711:57, 22 March 2007 diff hist +7 Harvard:Biophysics 101/2007/Project →Project Sections
• 11:5711:57, 22 March 2007 diff hist +192 Harvard:Biophysics 101/2007/Project →Project Sections

20 March 2007

• 11:2711:27, 20 March 2007 diff hist +658 Harvard:Biophysics 101/2007/Notebook:Xiaodi Wu/2007-3-20 No edit summary

16 March 2007

• 13:3313:33, 16 March 2007 diff hist +74 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-3-15 No edit summary current
• 04:1904:19, 16 March 2007 diff hist +261 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-3-15 No edit summary

15 March 2007

• 05:5805:58, 15 March 2007 diff hist +5,285 N Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-2-27 New page: <pre> # Katie Fifer # asst3 - sequence comparison #! /usr/bin/env python import os import re from Bio import Clustalw from Bio import Translate from Bio.Align import AlignInfo from Bio.A... current
• 05:5205:52, 15 March 2007 diff hist +146 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-3-15 No edit summary
• 05:2605:26, 15 March 2007 diff hist +13 Harvard:Biophysics 101/2007/Notebook:Katie Fifer/2007-3-15 No edit summary