Difference between revisions of "WebDev 2015.02.06-Agenda and Minutes"

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* Discussion on improving FPKM images
 
* Discussion on improving FPKM images
 
* Elsevier paper linking to WormBase, fixed search bugs so linking works correctly
 
* Elsevier paper linking to WormBase, fixed search bugs so linking works correctly
* Interval search progress
+
* Interval search progress - via GFF or Ace
 +
** LS: Tabix format for indexing a GFF file
  
== 3. JBrowse/GBrowse update status (Scott) ==
 
  
== 4. Intermine development update (Todd, for Paulo in absentia) ==
+
== 3. Mozilla Science Project - hackathon ==
 +
* March 7th and 8th
 +
* GW has an application for showing genomic structural rearrangements -- could be an interactive application
 +
* LEGO plots for genomic variation
 +
** Show all six nucleotides and tri-nucleotide context
  
== 5. OAuth discussion ==
+
== 4. JBrowse/GBrowse update status (Scott) ==
 +
 
 +
* Takes as input file from GBrowse build output that lists features and types present in GFF
 +
* Requires 24 hours on dev instance
 +
* Most WormBase data is done
 +
* modENCODE data is proving slower to port
 +
* Tracks for mimicking heat map glyph
 +
* Compressing tracks with very long citations
 +
** LS: Could they be popovers/rollovers
 +
 
 +
== 5. Intermine development update (Todd, for Paulo in absentia) ==
 +
 
 +
== 6. OAuth discussion ==
 +
 
 +
* Also use something that works with ORCID.
 +
* If we use an ORCID ID, we can associate users with papers.

Latest revision as of 16:51, 6 February 2015

Agenda

1. Administration update (Todd; 5 minute)

2. WS246 / WS247 development status (Sibyl)

  • Discussion on improving FPKM images
  • Elsevier paper linking to WormBase, fixed search bugs so linking works correctly
  • Interval search progress - via GFF or Ace
    • LS: Tabix format for indexing a GFF file


3. Mozilla Science Project - hackathon

  • March 7th and 8th
  • GW has an application for showing genomic structural rearrangements -- could be an interactive application
  • LEGO plots for genomic variation
    • Show all six nucleotides and tri-nucleotide context

4. JBrowse/GBrowse update status (Scott)

  • Takes as input file from GBrowse build output that lists features and types present in GFF
  • Requires 24 hours on dev instance
  • Most WormBase data is done
  • modENCODE data is proving slower to port
  • Tracks for mimicking heat map glyph
  • Compressing tracks with very long citations
    • LS: Could they be popovers/rollovers

5. Intermine development update (Todd, for Paulo in absentia)

6. OAuth discussion

  • Also use something that works with ORCID.
  • If we use an ORCID ID, we can associate users with papers.