QTL Lists for various Tripal Content Pages - Githubissues

UofS-Pulse-Binfo / tripal_qtl

Provides additional fields and data import which provide support for quantitative trait loci. Additionally, it integrates with Tripal Map through shared vocabulary terms and data storage models.

GNU General Public License v2.0

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QTL Lists for various Tripal Content Pages #4

Open laceysanderson opened 4 years ago

laceysanderson commented 4 years ago

Content Types

Genetic Maps
- List QTL on the current map.
Trait Pages
- List QTL associated with the current trait through feature_cvterm.
Genetic Marker Pages
- List the QTL for markers within the confidence interval.

Columns

genetic map w/ link,
trait w/ link,
QTL name w/ link,
linkage group & position
confidence interval
peak lod
additive effect w/ parent

Links

If Tripal Map is installed then link to the MapViewer.
If Tripal JBrowse is installed, link to JBrowse. For JBrowse we want tracks which highlight the markers within a QTL confidence interval (1 LOD drop). Ideally we would colour code these markers using a gradient with the darker colour nearest the peak.

laceysanderson commented 4 years ago

Field for Genetic map and Trait pages complete: so__qtl.