User contributions
From irefindex
- 15:14, 21 October 2010 diff hist +1,016 iRefIndex Build Process →Validating the Results from iRef_PSI_XML2RDBMS: Added undefined value queries.
- 12:20, 19 October 2010 diff hist +238 README iRefIndex MITAB2.6 proposal for 7.0 Added status note, updated release details. current
- 11:55, 19 October 2010 diff hist 0 m README iRefIndex MITAB2.6 proposal for 7.0 moved README iRefIndex MITAB2.6 7.0 to README iRefIndex MITAB2.6 proposal for 7.0: This is no longer relevant.
- 11:55, 19 October 2010 diff hist +56 N README iRefIndex MITAB2.6 7.0 moved README iRefIndex MITAB2.6 7.0 to README iRefIndex MITAB2.6 proposal for 7.0: This is no longer relevant. current
- 17:38, 18 October 2010 diff hist +641 README MITAB2.6 for iRefIndex 7.0 Various formatting and wording changes and fixes.
- 14:31, 15 October 2010 diff hist +457 iRefIndex Development →Defining the Database Identifier: Fixed the origin of identifiers.
- 13:24, 15 October 2010 diff hist +984 iRefIndex Development Added database identifier definition.
- 19:00, 14 October 2010 diff hist +77 README MITAB2.6 for iRefIndex 7.0 →Representation of interactions: Fixed formatting, list numbering, some wording.
- 18:37, 14 October 2010 diff hist +565 iRefIndex Build Process →Known Issues: Added BioGRID fix.
- 14:53, 14 October 2010 diff hist -271 iRefIndex Build Process →Known Issues: Switched back to the PSI-MI XML 2.5 version of BioGRID.
- 14:52, 14 October 2010 diff hist +5 Sources iRefIndex 8.0 →Interaction related resources: Fixed BioGRID reference.
- 13:27, 14 October 2010 diff hist -3 iRefIndex Build Process →Running the Program: Changed the execution method.
- 13:10, 14 October 2010 diff hist +497 iRefIndex Build Process →Known Issues: Updated the issues with observations from iRefIndex 8.0.
- 12:23, 14 October 2010 diff hist +161 iRefIndex Build Process →Running iRef_PSI_XML2RDBMS: Changed the formatting, added new data sources, changed source removal (adding, not removing # characters).
- 14:10, 13 October 2010 diff hist +161 iRefIndex Build Process →MIPS: Introduced a separate MPACT directory.
- 14:02, 13 October 2010 diff hist 0 iRefIndex Build Process Changed BioGrid to BioGRID.
- 10:22, 13 October 2010 diff hist +364 iRefIndex Build Process →Creating the Database: Added more restrictive grant statements.
- 17:03, 12 October 2010 diff hist +8 m iRefIndex Build Process →Validating the Results from StaxPSIXML: Changed the module name.
- 17:01, 12 October 2010 diff hist +2,376 iRefIndex Development →Adapting an Existing Mapper File: Added notes about different data origins.
- 16:37, 12 October 2010 diff hist +18,772 iRefIndex Development →Evaluating the Data: Updated the data structure output. Added MatrixDB.
- 14:37, 11 October 2010 diff hist +4,929 iRefIndex Development Added notes about adapting mapper files.
- 11:33, 11 October 2010 diff hist -1,991 iRefIndex Development →Reviewing Mapper Files: Updated output.
- 14:11, 8 October 2010 diff hist +91 iRefIndex Development →Evaluating the Data: Added InnateDB observations.
- 18:11, 7 October 2010 diff hist +8,416 iRefIndex Development →Adding Sources to iRefIndex: Updated the script invocation and added an explanation of the output.
- 16:10, 1 October 2010 diff hist +5,155 iRefIndex Development →Adding Sources to iRefIndex: Added description of XML element path analysis.
- 14:11, 1 October 2010 diff hist +319 iRefIndex Build Process →Running StaxPSIXML: Introduced iRef_PSI_XML2RDBMS references and described the convenience script.
- 14:01, 1 October 2010 diff hist -55 iRefIndex Build Process →Building StaxPSIXML: Introduced references to iRef_PSI_XML2RDBMS.
- 16:29, 30 September 2010 diff hist 0 m iRefIndex Build Process →BioGrid: Capitalisation changes.
- 14:04, 30 September 2010 diff hist +643 Gene Ontology similarity measurement Added concept comparison notes.
- 13:22, 30 September 2010 diff hist +182 iRefIndex Build Process →Clone seguid: Added a note about updating from a newer seguidannotation file. Modified the wording.
- 17:06, 28 September 2010 diff hist +3,367 N Gene Ontology similarity measurement Some initial notes.
- 16:21, 28 September 2010 diff hist +23 m DiG: Disease groups/Bioscape Notes Added category. current
- 16:15, 24 September 2010 diff hist +16 m iRefIndex Build Process →Running BioPSI_Suplimenter: Qualify the initial statement.
- 16:14, 24 September 2010 diff hist +195 iRefIndex Build Process →Manual loading of data: Added maintenance note.
- 15:54, 23 September 2010 diff hist +19 Sources iRefIndex 8.0 Added InnateDB details, removed OPHID.
- 15:54, 23 September 2010 diff hist +482 iRefIndex Build Process →Manual Downloads: Added InnateDB details.
- 15:32, 23 September 2010 diff hist +72 Sources iRefIndex 8.0 Updated MINT, Intact (probably unchanged, timestamp adjusted), NCBI resources.
- 16:08, 21 September 2010 diff hist +539 iRefIndex Build Process →Running SaxValidator: Added xmllint notes.
- 13:08, 21 September 2010 diff hist -16 iRefIndex Build Process →Running BioPSI_Suplimenter: Tidied the link to the previous section.
- 12:56, 21 September 2010 diff hist -16 Sources iRefIndex 8.0 →Sequence related resources: Changed SEGUID details, although the actual contents of seguidannotation is unchanged from the previous release.
- 11:04, 21 September 2010 diff hist +99 iRefIndex Build Process Updated the sources link and added a note about SEGUID.
- 16:55, 20 September 2010 diff hist +111 Sources iRefIndex 8.0 →Sequence related resources: Updated UniProt details.
- 16:16, 20 September 2010 diff hist +987 iRefIndex Build Process Added Ant installation information.
- 15:57, 20 September 2010 diff hist -99 iRefIndex Build Process Tidied formatting.
- 15:51, 20 September 2010 diff hist -43 iRefIndex Build Process →Building FTPtransfer: Tidied formatting.
- 11:39, 15 September 2010 diff hist +167 Sources iRefIndex 8.0 →Interaction related resources: Updated DIP, added MatrixDB, MPIDB, InnateDB details.
- 08:55, 15 September 2010 diff hist -71 m Bioinformatics course Removed weird "skype highlighting" text.
- 16:49, 14 September 2010 diff hist -4 Sources iRefIndex 8.0 →Interaction related resources: Updated I2D details.
- 16:08, 14 September 2010 diff hist +1 Sources iRefIndex 8.0 →Interaction related resources: Updated HPRD, removing the trailing / which upsets their site.
- 12:54, 14 September 2010 diff hist +10 Sources iRefIndex 8.0 →Interaction related resources: Tidied, fixed and confirmed BIND Translation details. Updated BioGRID details.
- 12:00, 14 September 2010 diff hist +47 iRefIndex Build Process →BIND Translation: Updated the download information.
- 09:32, 6 September 2010 diff hist -71 m Bioinformatics course Removed weird "skype highlighting" text.
- 13:46, 23 August 2010 diff hist -11 iRefIndex →Contact: Fixed link to new Biotek site.
- 14:31, 5 August 2010 diff hist +3 m README MITAB2.6 for iRefIndex 7.0 →Understanding the iRefIndex MITAB format: Minor fixes and formatting changes.
- 16:58, 15 July 2010 diff hist -356 Bioseminar Updated the page to give details of the new arrangements.
- 16:48, 15 July 2010 diff hist +5,192 Bioscape Result Assessment Added notes about disambiguation using unambiguous/reliable gene mentions. current
- 13:49, 14 July 2010 diff hist -92 m Bioscape Issues and Tasks Moved note to a separate page. current
- 13:48, 14 July 2010 diff hist -92 m Bioscape Development Moved note to a separate page. current
- 13:48, 14 July 2010 diff hist +22 m Displaying Bioscape Search Results Added status note. current
- 13:47, 14 July 2010 diff hist +22 m Bioscape Web Resources Added status note. current
- 13:47, 14 July 2010 diff hist +22 m Bioscape Result Assessment Added status note.
- 13:46, 14 July 2010 diff hist +22 m Bioscape Searching Techniques Added status note. current
- 13:46, 14 July 2010 diff hist +22 m Bioscape Searching Added status note. current
- 13:45, 14 July 2010 diff hist +22 m Bioscape Tokenisation Added status note. current
- 13:45, 14 July 2010 diff hist +71 Bioscape Indexing Added status note. Clarified the status of the indexing solutions used in Bioscape. current
- 13:44, 14 July 2010 diff hist +22 m Bioscape Scoring Techniques Added status note. current
- 13:43, 14 July 2010 diff hist -92 m Bioscape Methods Moved note to a separate page. current
- 13:42, 14 July 2010 diff hist +22 m Bioscape Data Types Added status note. current
- 13:41, 14 July 2010 diff hist +141 Supported Data Sources Added status note, changed note appearances, added GeneRIF. current
- 13:39, 14 July 2010 diff hist +22 m Bioscape Data Sources Added status note. current
- 13:39, 14 July 2010 diff hist -92 m Bioscape Distribution Moved note to a separate page. current
- 13:38, 14 July 2010 diff hist +22 m Bioscape Workflow Added status note. current
- 13:38, 14 July 2010 diff hist +22 m Bioscape Configuration Added status note. current
- 13:37, 14 July 2010 diff hist -145 Bioscape Dependencies Moved note to a separate page. Removed Lucene from the dependencies. current
- 13:36, 14 July 2010 diff hist -92 m Bioscape Installation Moved note to a separate page. current
- 13:36, 14 July 2010 diff hist -92 m Bioscape Manual Moved note to a separate page. current
- 13:35, 14 July 2010 diff hist +103 N Bioscape Status Added a common note for inclusion in other pages. current
- 15:34, 9 July 2010 diff hist +6,161 N iRefIndex MITAB2.6 Parser Attempted to make a page corresponding to the revised MITAB format.
- 16:17, 8 July 2010 diff hist +485 README iRefIndex MITAB2.6 proposal for 7.0 →Understanding the iRefIndex MITAB format: Added some notes about finding different group sizes.
- 15:27, 8 July 2010 diff hist +2,195 README iRefIndex MITAB2.6 proposal for 7.0 →Understanding the iRefIndex MITAB format: Introduced sections. Added a description of the canonical interaction information.
- 18:12, 7 July 2010 diff hist -151 README iRefIndex MITAB2.6 proposal for 7.0 →Description: Updated version references.
- 18:10, 7 July 2010 diff hist +207 README iRefIndex MITAB2.6 proposal for 7.0 →Understanding the iRefIndex MITAB format: Updated the table.
- 17:44, 7 July 2010 diff hist -2,717 README iRefIndex MITAB2.6 proposal for 7.0 Removed columns 41 and 42. Renumbered the columns and references to columns.
- 17:03, 7 July 2010 diff hist -1,168 README iRefIndex MITAB2.6 proposal for 7.0 Removed columns 47 (replacing 35), 53.
- 16:58, 7 July 2010 diff hist +231 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 52 (numParticipants): Added a description of how this value can be different from the number of distinct interactors.
- 16:56, 7 July 2010 diff hist -54 m README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 51 (edgetype): Removed notes.
- 16:54, 7 July 2010 diff hist -35 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 44 (entrezGeneIds_B): Replaced with irogB.
- 16:54, 7 July 2010 diff hist -115 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 43 (entrezGeneIds_A): Replaced with irogA.
- 16:48, 7 July 2010 diff hist +14 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 39 (Final_ROGID_A): Column change.
- 16:47, 7 July 2010 diff hist +4 m README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 36 (Negative): Added horizontal rule.
- 16:46, 7 July 2010 diff hist -278 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 34 (Checksum_B): Replaced with content from After_C13N_ROGID_B in column 42.
- 16:44, 7 July 2010 diff hist +2,196 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 33 (Checksum_A): Replaced the content with the After_ROGID_A content previously in column 41.
- 16:30, 7 July 2010 diff hist -1 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 1 (uidA): Fixed column type.
- 16:30, 7 July 2010 diff hist -29 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 2 (uidB): Changed the example to reflect the updated nature of the field.
- 16:29, 7 July 2010 diff hist -795 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 1 (uidA): Changed the nature of the identifier, as discussed.
- 16:27, 7 July 2010 diff hist -3 README iRefIndex MITAB2.6 proposal for 7.0 →Understanding the iRefIndex MITAB format: Fixes in wording, formatting.
- 14:57, 6 July 2010 diff hist -10 README iRefIndex MITAB2.6 proposal for 7.0 →Understanding the iRefIndex MITAB format: Fixed Final_ROGID names.
- 14:57, 6 July 2010 diff hist -5 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 40 (Final_C13N_ROGID_B): Fixed name, referenced column number.
- 14:56, 6 July 2010 diff hist -5 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 39 (Final_C13N_ROGID_A): Fixed name.
- 11:34, 5 July 2010 diff hist +33 README iRefIndex MITAB2.6 proposal for 7.0 →Column number: 11 (taxb): Fixed column type and description.