User contributions for AngieHinrichs
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16 August 2011
- 16:2216:22, 16 August 2011 diff hist +1 m Genes in gtf or gff format typo fix
7 April 2011
- 21:5821:58, 7 April 2011 diff hist 0 File:VariationGenecats20110406.pdf uploaded a new version of "Image:VariationGenecats20110406.pdf" current
- 21:5821:58, 7 April 2011 diff hist 0 File:VariationGenecats20110406.pptx uploaded a new version of "Image:VariationGenecats20110406.pptx": Corrected definition of polymorphism, caught by David and Tom. current
6 April 2011
- 20:1720:17, 6 April 2011 diff hist +95 N File:VariationGenecats20110406.pdf PDF version of .pptx slides -- animations are squashed so one slide isn't very readable, sorry.
- 20:1620:16, 6 April 2011 diff hist +184 Presentations →2011: Added April 6 genecats on human variation track work
- 20:1020:10, 6 April 2011 diff hist +85 N File:VariationGenecats20110406.pptx Angie's recent fun with dbSNP, VCF and GVF, from a browser developer's point of view.
16 March 2011
- 16:3516:35, 16 March 2011 diff hist +202 N File:Knetfile hooks tabix-0.2.3.patch Modifies tabix library from [http://samtools.sourceforge.net/] to add a wrapper layer to its network code. That allows UCSC to hook up its own network code in place of tabix's. See KNETFILE_HOOKS. current
- 16:3216:32, 16 March 2011 diff hist +863 KNETFILE HOOKS Adding tabix KNETFILE_HOOKS patch.
- 16:0916:09, 16 March 2011 diff hist +2,129 Build Environment Variables →External library configuration (USE_*): Added section for USE_TABIX (+KNETFILE_HOOKS).
29 November 2010
- 19:0419:04, 29 November 2010 diff hist +570 KNETFILE HOOKS Added samtools-0.1.{9,10,11}
- 18:5918:59, 29 November 2010 diff hist +73 KNETFILE HOOKS →Apply Patch: Added -p1 which is necessary 0.1.9 and later, and updated suggested version to 0.1.11.
- 18:5818:58, 29 November 2010 diff hist +116 KNETFILE HOOKS →Patch files: Added files for 0.1.{9,10,11}
- 18:5718:57, 29 November 2010 diff hist +75 N File:Knetfile hooks.0.1.11.patch Patch for samtools-0.1.11 (samtools.sourceforge.net), see [KNETFILE_HOOKS]. current
- 18:5618:56, 29 November 2010 diff hist +75 N File:Knetfile hooks.0.1.10.patch Patch for samtools-0.1.10 (samtools.sourceforge.net), see [KNETFILE_HOOKS]. current
- 18:5518:55, 29 November 2010 diff hist +74 N File:Knetfile hooks.0.1.9.patch Patch for samtools-0.1.9 (samtools.sourceforge.net), see [KNETFILE_HOOKS]. current
12 May 2010
- 21:3621:36, 12 May 2010 diff hist +61 Build Environment Variables →USE_BAM (+KNETFILE_HOOKS): Added link to samtools extension (knetfile_hooks).
20 March 2010
- 06:1006:10, 20 March 2010 diff hist +130 ABRF2010 Tutorial →Tutorial: Viewing sequencing data in the UCSC Genome Browser
- 06:0706:07, 20 March 2010 diff hist +38 N File:ABRF2010 UCSC NGS.pdf backup in case workshop internet fails current
- 06:0706:07, 20 March 2010 diff hist +38 N File:ABRF2010 UCSC NGS.ppt backup in case workshop internet fails current
- 05:1305:13, 20 March 2010 diff hist +446 ABRF2010 Tutorial →Steps
- 05:1005:10, 20 March 2010 diff hist +56 N File:ABRF2010 chr21 export baseQual.png checkpoint image for demo/tutorial at ABRF 2010 workshop current
- 05:0705:07, 20 March 2010 diff hist +56 N File:ABRF2010 chr21 export grayQual.png checkpoint image for demo/tutorial at ABRF 2010 workshop current
- 05:0405:04, 20 March 2010 diff hist +56 N File:ABRF2010 chr21 export 1MB.png checkpoint image for demo/tutorial at ABRF 2010 workshop current
- 04:5904:59, 20 March 2010 diff hist +155 ABRF2010 Tutorial →Steps
- 04:5804:58, 20 March 2010 diff hist 0 File:ABRF2010 TFBS.png uploaded a new version of "Image:ABRF2010 TFBS.png": smaller still, sheesh current
- 04:5604:56, 20 March 2010 diff hist 0 File:ABRF2010 TFBS.png uploaded a new version of "Image:ABRF2010 TFBS.png": a bit narrower, to avoid fuzzy transform
- 04:5204:52, 20 March 2010 diff hist +56 N File:ABRF2010 TFBS.png checkpoint image for demo/tutorial at ABRF 2010 workshop
- 04:4904:49, 20 March 2010 diff hist +167 ABRF2010 Tutorial →Steps
- 04:4704:47, 20 March 2010 diff hist +56 N File:ABRF2010 redbinGt15.png checkpoint image for demo/tutorial at ABRF 2010 workshop current
- 04:4304:43, 20 March 2010 diff hist +188 ABRF2010 Tutorial →Steps
- 04:3904:39, 20 March 2010 diff hist +56 N File:ABRF2010 redbin 1.png checkpoint image for demo/tutorial at ABRF 2010 workshop current
- 04:2304:23, 20 March 2010 diff hist 0 File:ABRF2010 ggData.png uploaded a new version of "Image:ABRF2010 ggData.png": smaller -- the original was getting transformed down to 800 pix wide, which still didn't fit very well in 1020-pix wide browser and looked fuzzy. current
- 00:0600:06, 20 March 2010 diff hist +148 ABRF2010 Tutorial →Steps: Added first image with catch-up link
19 March 2010
- 23:5423:54, 19 March 2010 diff hist +56 N File:ABRF2010 ggData.png checkpoint image for demo/tutorial at ABRF 2010 workshop
- 22:5522:55, 19 March 2010 diff hist +39 ABRF2010 Tutorial →Extra
- 22:3222:32, 19 March 2010 diff hist +11 ABRF2010 Tutorial →Steps
- 22:3022:30, 19 March 2010 diff hist +205 ABRF2010 Tutorial →Tutorial: Viewing sequencing data in the UCSC Genome Browser: credits to Charlie
- 22:1022:10, 19 March 2010 diff hist +280 ABRF2010 Tutorial →Where to learn more: added links
- 22:0522:05, 19 March 2010 diff hist +3,756 ABRF2010 Tutorial →Steps: Added details, session links and b0b's SNP regions.
- 18:3418:34, 19 March 2010 diff hist +881 ABRF2010 Tutorial →Steps
- 18:2318:23, 19 March 2010 diff hist +530 ABRF2010 Tutorial →Steps
- 18:0618:06, 19 March 2010 diff hist +50 ABRF2010 Tutorial →Tutorial: Viewing sequencing data in the UCSC Genome Browser
- 18:0518:05, 19 March 2010 diff hist +619 ABRF2010 Tutorial →Steps: added session links
- 17:4517:45, 19 March 2010 diff hist +1 ABRF2010 Tutorial →Steps
- 17:4417:44, 19 March 2010 diff hist +300 ABRF2010 Tutorial →Transforming .sgr into bedGraph for Genome Browser viewing
- 17:3617:36, 19 March 2010 diff hist 0 ABRF2010 Tutorial →Steps
- 17:3517:35, 19 March 2010 diff hist +1 ABRF2010 Tutorial →Transforming .sgr into bedGraph for Genome Browser viewing
- 17:1717:17, 19 March 2010 diff hist +296 ABRF2010 Tutorial →Comparing with UCSC-hosted data
- 17:1417:14, 19 March 2010 diff hist +2 ABRF2010 Tutorial →Where to learn more
- 17:1317:13, 19 March 2010 diff hist +38 ABRF2010 Tutorial →Tutorial: Viewing sequencing data in the UCSC Genome Browser
- 17:1117:11, 19 March 2010 diff hist +1,001 ABRF2010 Tutorial →Viewing alignments in BAM format
- 16:5116:51, 19 March 2010 diff hist +42 ABRF2010 Tutorial →Viewing alignments in BAM format: <nowiki> for fyi-URL; bold for something they should copy-paste.
- 16:3116:31, 19 March 2010 diff hist −66 ABRF2010 Tutorial →Transforming .sgr into bedGraph for Genome Browser viewing: Make URL-to-paste bold + <nowiki>.
- 16:2716:27, 19 March 2010 diff hist +20 ABRF2010 Tutorial →Genome Graphs with .sgr data: Make URLs bold + <nowiki>
18 March 2010
- 16:5216:52, 18 March 2010 diff hist +112 ABRF2010 Tutorial No edit summary
- 05:5805:58, 18 March 2010 diff hist +1,563 ABRF2010 Tutorial filling in some blanks
- 05:0405:04, 18 March 2010 diff hist +4,254 N ABRF2010 Tutorial skeletal first draft.
26 February 2010
- 23:1223:12, 26 February 2010 diff hist +582 Build Environment Variables →USE_BAM: Added KNETFILE_HOOKS.
25 October 2009
- 03:4403:44, 25 October 2009 diff hist +463 UdcFuse added some impl considerations
20 October 2009
- 22:3322:33, 20 October 2009 diff hist +21 m UdcFuse fixed whitespace for readdir prototype
- 22:3122:31, 20 October 2009 diff hist +1,177 UdcFuse Updated method descriptions.
15 October 2009
- 20:5920:59, 15 October 2009 diff hist −207 UdcFuse unbailing - Mark found that kernel handles seek by passing offset to read function.
13 October 2009
- 00:2200:22, 13 October 2009 diff hist +161 UdcFuse FUSE doesn't do seek... bailing. :(
12 October 2009
- 22:2722:27, 12 October 2009 diff hist +2,475 UdcFuse basics of filesystem structure, FUSE methods
- 19:1319:13, 12 October 2009 diff hist +1,692 N UdcFuse intro
5 October 2009
- 20:4620:46, 5 October 2009 diff hist +720 Make your own virtual space Most hgwdev-$USERs have no need to change the central.* settings from the default in cgi-bin/hg.conf.
4 September 2009
- 23:1523:15, 4 September 2009 diff hist +4,431 N Build Environment Variables Initial purpose was simply to describe USE_*, but expanded to cover other shell env vars that common.mk looks at.
- 21:2721:27, 4 September 2009 diff hist +1 Generic Makefile Use L +=
15 September 2008
- 20:0320:03, 15 September 2008 diff hist +890 Migration to hive Added "Who's responsible?" section.
- 19:5019:50, 15 September 2008 diff hist +195 m Migration to hive →GPFS vs. NFS, or how to move directories: clarifications
- 19:4019:40, 15 September 2008 diff hist +5,086 N Migration to hive Draft guidelines for migrating our files from old NFS servers to the new /hive.
27 August 2008
- 23:5323:53, 27 August 2008 diff hist −107 Presentations →2008: Removed Erich's presentation -- concerns about contents.
- 21:1721:17, 27 August 2008 diff hist +610 Presentations Added a few of my presentations from the past few years.
- 20:5720:57, 27 August 2008 diff hist +169 N File:Browsers CSHL Chicken 2005 05.ppt Presentation about the UCSC Genome Browser and Table Browser, at the Chicken Genome meeting at CSHL in May 2005 (just before the Biology of Genomes mtg, not part of it). current
- 20:5420:54, 27 August 2008 diff hist +91 N File:Automation 2006 09 12 v2.ppt Sep. 21, 2006 Genecats presentation about the scripts that ended up in hg/utils/automation. current
- 20:5120:51, 27 August 2008 diff hist +111 N File:Bejerano Lab 2008 03 31.ppt Crash course on making use of the kent/src tree, presented to Gill Bejerano's group at Stanford March 31, 2008. current
- 20:3920:39, 27 August 2008 diff hist +107 Presentations →2008: Added Erigh's 8/27/08 presentation.
- 20:3820:38, 27 August 2008 diff hist +47 N File:Swarm.ppt Erich's presentation at the 8.27.2008 genecats. current
21 April 2008
- 19:4819:48, 21 April 2008 diff hist −120 PCR on cDNA Updated description of seqTable and extFileTable which are now optional (seqFile can be used instead). current
11 April 2008
- 22:5622:56, 11 April 2008 diff hist −82 m PCR on cDNA No edit summary
- 22:5422:54, 11 April 2008 diff hist +6,553 N PCR on cDNA After-the-fact/in-progress design doc.
9 February 2008
- 00:2200:22, 9 February 2008 diff hist +37 DbSNP Track Notes →Track tables and files: -- updated, having built the extras for human,
24 January 2008
- 05:3405:34, 24 January 2008 diff hist +3,675 DbSNP Track Notes Updated after putting snp128 in the pushQ; could still say a lot more.
12 December 2007
- 23:1923:19, 12 December 2007 diff hist +8 m Ensembl tutorial signup →Attending
30 November 2007
- 05:3505:35, 30 November 2007 diff hist +4,805 N DbSNP Track Notes First draft of notes on SNP track development.
14 November 2007
- 21:0721:07, 14 November 2007 diff hist +207 Whole genome alignment howto Added links to Blastz, Conservation_Track and the modEncode wiki page that AngieTest was a draft for.
- 20:5420:54, 14 November 2007 diff hist +34 m Chains Nets Added Category:Comparative Genomics
- 20:5320:53, 14 November 2007 diff hist +34 m Blastz Added Category:Comparative Genomics
- 20:5120:51, 14 November 2007 diff hist −72 Conservation Track Added links to Blastz and Chains_Nets; wiki-formatted. current
- 20:2820:28, 14 November 2007 diff hist +14 Implementation Notes Added Blastz.
- 20:2720:27, 14 November 2007 diff hist +75 m Blastz added Category:Technical FAQ and link to Implementation Notes.
- 20:1920:19, 14 November 2007 diff hist +391 Chains Nets Added references to the new Blastz page; updated some kent/src paths.
- 20:0720:07, 14 November 2007 diff hist +4,182 N Blastz Brief description w/references, UCSC history, and the 3 different meanings of "repeats" / "masking".
25 October 2007
- 17:4217:42, 25 October 2007 diff hist +2,640 N Coordinate Transforms Brief description of 1-based fully closed vs. 0-based half-open, example w/translating coords to opposite strand.
10 October 2007
- 19:1319:13, 10 October 2007 diff hist −16,639 AngieTest Gutted contents to avoid dangling category reference. current
10 September 2007
- 19:4619:46, 10 September 2007 diff hist +2,651 m AngieTest Polishing... formatting, shorthand to text.
6 September 2007
- 23:2523:25, 6 September 2007 diff hist +1,570 m AngieTest minor formatting tweaks / clarifications
- 23:0723:07, 6 September 2007 diff hist +13,127 N AngieTest first draft of GBrowse UCSC plugin howto.
30 August 2007
- 05:1505:15, 30 August 2007 diff hist +196 AutoSql Added details about autoSql type support from MarkD.
29 August 2007
- 23:0323:03, 29 August 2007 diff hist +4,907 AutoSql Added long-winded browser-qa missive
