User contributions for AngieHinrichs
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7 May 2012
- 15:5915:59, 7 May 2012 diff hist +3,026 N BoG2012VariationPoster Page with links to poster source, session links, 1kG data used, help pages etc. current
14 December 2011
- 16:5316:53, 14 December 2011 diff hist 0 File:Knetfile hooks tabix-0.2.5.patch uploaded a new version of "File:Knetfile hooks tabix-0.2.5.patch": Ugh, really uploading the updated file now. current
13 December 2011
- 23:5823:58, 13 December 2011 diff hist 0 File:Knetfile hooks tabix-0.2.5.patch uploaded a new version of "File:Knetfile hooks tabix-0.2.5.patch": This now renames all instances of bgzf_ to ti_bgzf_ because some versions of samtools have more conflicts than others and the previous patch wasn't renaming enough bgzf_ func
7 December 2011
- 18:5518:55, 7 December 2011 diff hist 0 File:Knetfile hooks tabix-0.2.5.patch uploaded a new version of "File:Knetfile hooks tabix-0.2.5.patch": This was out of date; it was missing the change from bgzf_tell to ti_bgzf_tell.
8 November 2011
- 22:5322:53, 8 November 2011 diff hist +412 Demo sandbox Added a subsection about dealing with possible rsync errors when building CGIs.
- 19:2519:25, 8 November 2011 diff hist +9 m Demo sandbox →Your demo responsibility: "assembly" -> "trackDb_demo''N''"
- 19:2319:23, 8 November 2011 diff hist +69 Demo sandbox →Building your demo assemblies: USER=demoN on command line; restore USER with /usr/bin/whoami if necessary.
- 19:1619:16, 8 November 2011 diff hist +570 Demo sandbox →Building your demo CGIs: Instead of modifying your shell envi's USER variable, you can set USER on the make command line -- seems cleaner to me. Also, no need for IMAGEEK; /usr/bin/whoami.
- 18:5818:58, 8 November 2011 diff hist +72 Demo sandbox →Claimed sandbox table: demo3
25 October 2011
- 19:0019:00, 25 October 2011 diff hist +287 KNETFILE HOOKS →Description: Added link to github pull request.
17 October 2011
- 17:4517:45, 17 October 2011 diff hist −87 KNETFILE HOOKS Made the samtools version sections into subsections of a samtools version notes section.
- 17:3217:32, 17 October 2011 diff hist +78 KNETFILE HOOKS →Patch files for samtools: added files for 0.1.16, 0.1.17
- 17:3117:31, 17 October 2011 diff hist +75 N File:Knetfile hooks.0.1.16.patch Patch for samtools-0.1.16 (samtools.sourceforge.net), see [KNETFILE_HOOKS]. current
- 17:2817:28, 17 October 2011 diff hist +75 N File:Knetfile hooks.0.1.17.patch Patch for samtools-0.1.17 (samtools.sourceforge.net), see [KNETFILE_HOOKS]. current
- 17:2017:20, 17 October 2011 diff hist +39 KNETFILE HOOKS Added patch file for samtools 0.1.18. Didn't add new section, nothing new to say about this patch relative to prior patches.
- 17:1617:16, 17 October 2011 diff hist +75 N File:Knetfile hooks.0.1.18.patch Patch for samtools-0.1.18 (samtools.sourceforge.net), see [KNETFILE_HOOKS]. current
7 September 2011
- 15:5615:56, 7 September 2011 diff hist +255 Presentations →2011: Added HGV2011 poster
- 15:5415:54, 7 September 2011 diff hist −1 HGV2011 →UCSC Genome Browser poster
- 15:5415:54, 7 September 2011 diff hist 0 N File:HGV2011 GenomeBrowser.pdf No edit summary current
- 15:4615:46, 7 September 2011 diff hist +49 m Presentations →2008
- 15:4415:44, 7 September 2011 diff hist +31 m HGV2011 →Other posters about the UCSC Genome Browser
- 15:4215:42, 7 September 2011 diff hist +246 HGV2011 →Other posters
- 15:1815:18, 7 September 2011 diff hist +7 m HGV2011 No edit summary
- 15:1715:17, 7 September 2011 diff hist +2 m HGV2011 →View poster screenshots in the Genome Browser
- 15:1615:16, 7 September 2011 diff hist +150 HGV2011 →View poster screenshots in the Genome Browser
- 15:1015:10, 7 September 2011 diff hist +113 HGV2011 →Other links
- 15:0815:08, 7 September 2011 diff hist 0 HGV2011 →View poster screenshots in the Genome Browser
- 06:3406:34, 7 September 2011 diff hist +1,490 HGV2011 Adding poster files, screenshot session links
- 06:0906:09, 7 September 2011 diff hist 0 N File:HGV2011 GenomeBrowser.pptx No edit summary current
- 06:0606:06, 7 September 2011 diff hist 0 N File:HGV2011 GenomeBrowser Abstract.docx No edit summary current
3 September 2011
- 07:2607:26, 3 September 2011 diff hist +17 m HGV2011 added conf. date
- 07:2407:24, 3 September 2011 diff hist +636 N HGV2011 very rough draft -- I intend to put this page's URL on my poster so there's something for people to click around, get poster source/pdf etc.
- 07:0607:06, 3 September 2011 diff hist +148 Presentations →2008: Added Genomics of Common Disease poster.
2 September 2011
- 22:5722:57, 2 September 2011 diff hist +53 N File:UCSC Genome Browser GCD 2008.pdf Poster presented at Genomics of Common Disease, 2008. current
- 22:5522:55, 2 September 2011 diff hist +53 N File:UCSC Genome Browser GCD 2008.ppt Poster presented at Genomics of Common Disease, 2008. current
24 August 2011
- 23:5123:51, 24 August 2011 diff hist +60 KNETFILE HOOKS Added section for tabix-0.2.5
- 23:5023:50, 24 August 2011 diff hist +44 KNETFILE HOOKS →Patch files for tabix
- 23:4923:49, 24 August 2011 diff hist +200 N File:Knetfile hooks tabix-0.2.5.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.
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.
