|
|
# Réunion PhyloAlps #16
|
|
|
## *PhyloAlps/PhyloNorway Workshop à Tromso, Norvège*
|
|
|
*04-06/12/2018*
|
|
|
|
|
|
## Participants
|
|
|
* Adriana Alberti
|
|
|
* Inger Greve Alsos
|
|
|
* France Denoeud
|
|
|
* Eric Coissac
|
|
|
* Anthony Hombiat
|
|
|
* Sébastien Lavergne
|
|
|
|
|
|
### Data
|
|
|
|
|
|
#### Model
|
|
|
* Add tag for the sequencing quality indicator
|
|
|
* Add software attribute for sequence/assemby
|
|
|
* Add a BOLD compliance indicator:
|
|
|
* Sample ID
|
|
|
* Museum ID/Field ID
|
|
|
* Associated collections
|
|
|
* Sample location
|
|
|
* Picture (= voucher)
|
|
|
|
|
|
#### Datasets
|
|
|
* Expose Django DB as RDF
|
|
|
* Integrate Androsace phenotypic traits data
|
|
|
* Integrate GBIF occurrences data
|
|
|
|
|
|
#### Versioning
|
|
|
* Method to go from one version to the next
|
|
|
* Method to update taxon from taxonomies
|
|
|
|
|
|
#### Quality
|
|
|
* Implement annotations interfaces
|
|
|
* Create multidimensional data quality indicator
|
|
|
|
|
|
#### Download
|
|
|
* embl files in archive
|
|
|
|
|
|
### Taxonomy
|
|
|
|
|
|
#### Table
|
|
|
* Add project in the taxa interface
|
|
|
* Add family browsing in taxa
|
|
|
* Put the number of results up
|
|
|
* Replace the vernacular taxon name with the project name
|
|
|
* Some Species taxon are related to subspecies !
|
|
|
* Replace the "CBNA name" label with "Provider name"
|
|
|
|
|
|
#### Tree structure
|
|
|
* Allow the user to show/hide the no sample taxa
|
|
|
* Expand the node when there is only one way with samples
|
|
|
* Reset the search box when clicking a node
|
|
|
* Show a loader when clicking a node (to prevent multiple clicks)
|
|
|
* Plant/Animal button to change the root of the tree
|
|
|
* Show the path to the selected taxon in a clickable breadcrumb
|
|
|
* Go further to the right when a node is open if its children are outside the viewport
|
|
|
|
|
|
#### Name reconciliation
|
|
|
* Bridge the gap between taxon from different Taxonomies with:
|
|
|
* ontology matchers
|
|
|
* TNRS systems
|
|
|
* Each taxon must be linked to an instance of a the taxonomy concept which has release date
|
|
|
|
|
|
### DNA Assembly
|
|
|
|
|
|
#### Template
|
|
|
* Add gene browser
|
|
|
* Allow some people to browse without seeing the link to the sequence
|
|
|
|
|
|
#### Graph
|
|
|
* Add legend for color, style, thickness
|
|
|
* Display infos in a box on the right with the tooltip info
|
|
|
|
|
|
### Sampleset
|
|
|
* People can create a temporary sampleset and ask for the associated set of sequences by mail
|
|
|
* Add the sampleset creation feature
|
|
|
* session samplesets
|
|
|
* permanent samplesets
|
|
|
|
|
|
### User roles
|
|
|
* Anonymous: can browse
|
|
|
* Project Member: can browse, edit
|
|
|
* Project Supervisor: can browse, edit, flag
|
|
|
* Administrator: can browse, edit, flag, manage members
|
|
|
|
|
|
### Django Application
|
|
|
* Advanced search interface (see the Tropicos app)
|
|
|
|
|
|
### Cartographic map
|
|
|
* Prevent the map dialog box to move when its link is clicked |