EMMAWiki/FuturePlans: Difference between revisions
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imported>MichaelDondrup No edit summary |
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I just wanted to sketch some things that should be done in the near future (in german only {de} ) | I just wanted to sketch some things that should be done in the near future (in german only {de} ) | ||
== [[ToDo]] Features == | == [[ToDo]] Features (for 2.4) == | ||
* Debug new cluster viewer | |||
* K-means und Neural gas | |||
* Detailed channel information for arrays | |||
* MAGE exporter | |||
* Ontology | |||
* Allow role User to upload array designs | |||
{| border="1" cellpadding="2" cellspacing="0" | {| border="1" cellpadding="2" cellspacing="0" | ||
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|- | |- | ||
| 2. | | 2. | ||
| | | Analysis | ||
| | | Funktion zum auswaehlen von Annotations Features in Pipeline | ||
| | | ??? | ||
| {3} | | {3} | ||
| 2 | | 2 | ||
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| Create Van-diagrams | | Create Van-diagrams | ||
| | | | ||
| | | :( | ||
| 1 | | 1 | ||
| 0 | | 0 | ||
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| Experiment design templates | | Experiment design templates | ||
| | | | ||
| | | :( | ||
| 2 | | 2 | ||
| 0 | | 0 | ||
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| Cluster Viewer | | Cluster Viewer | ||
| Export the cluster overview charts as image (on the left) | | Export the cluster overview charts as image (on the left) | ||
| | | | ||
| | | :( | ||
| 0.5 | | 0.5 | ||
| 90 | | 90 | ||
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| {1} | | {1} | ||
| 2 | | 2 | ||
| | | 95 | ||
|- | |- | ||
| 11. | | 11. | ||
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| Update & delete of [[ArrayDesing]] in Web | | Update & delete of [[ArrayDesing]] in Web | ||
| | | | ||
| { | | {3} | ||
| 5 | | 5 | ||
| 0 | | 0 | ||
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| 12. | | 12. | ||
| Analysis | | Analysis | ||
| Pipeline update, | | Pipeline update,enable different [[DesignElementDimensions]] for each [[DataSet]] | ||
| | | | ||
| { | | {3} | ||
| 4 | | 4 | ||
| 0 | | 0 | ||
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| Make lasso select in plots and use selection for further analysis | | Make lasso select in plots and use selection for further analysis | ||
| | | | ||
| | | :( | ||
| | | | ||
| | | | ||
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| Save user filtered datasets | | Save user filtered datasets | ||
| Felix | | Felix | ||
| { | | {3} | ||
| | | | ||
| | | | ||
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| 15. | | 15. | ||
| Integration | | Integration | ||
| Add | | Add Web-services layer for queries | ||
| | | | ||
| {1} | |||
| | | | ||
| 80 | |||
|- | |- | ||
| Allways | | Allways |
Revision as of 09:38, 8 November 2006
I just wanted to sketch some things that should be done in the near future (in german only {de} )
ToDo Features (for 2.4)
- Debug new cluster viewer
- K-means und Neural gas
- Detailed channel information for arrays
- MAGE exporter
- Ontology
- Allow role User to upload array designs
Bereich | Feature | Entwickler | Prioritaet | geschaetzter Aufwand (*10 WS) | Entwicklungsstand (%) | |
1. | Array View | Search for Reporters in Overlay | Felix | {2} | 2 | 70 |
2. | Analysis | Funktion zum auswaehlen von Annotations Features in Pipeline | ??? | {3} | 2 | |
3. | Analysis | Integrate Cyber-T | MD, Dominik? | {3} | 3 | 0 |
4. | Analysis | ANOVA Tool (one-way, two way?) | MD, Thasso | {3} | 3 | 10 |
5. | Backend | Put MAGE-Imp.Exp.from script to the webinterface | MD, Kai | {3} | 3 | 50 |
6. | Analysis | Create Van-diagrams | :( | 1 | 0 | |
7. | Experiment | Experiment design templates | :( | 2 | 0 | |
8. | Cluster Viewer | Export the cluster overview charts as image (on the left) | :( | 0.5 | 90 | |
9. | BRIDGE | MT-SAMS/EMMA integration | All | {1} | 2 | 95 |
11. | ArrayDesign | Update & delete of ArrayDesing in Web | {3} | 5 | 0 | |
12. | Analysis | Pipeline update,enable different DesignElementDimensions for each DataSet | {3} | 4 | 0 | |
13. | Interface gimmicks | Make lasso select in plots and use selection for further analysis | :( | |||
14. | Data Browser | Save user filtered datasets | Felix | {3} | ||
15. | Integration | Add Web-services layer for queries | {1} | 80 | ||
Allways | Doku | Wiki doku vervollstaendigen | Alle | {2} | 85 |
Old ToDos
-- MichaelDondrup DateTime(2006-02-23T17:31:29Z)
1. | Analysis | Normalization on Controls | MD, Thasso | {1} | 4 | 100 |
2. | Backend | integrate ImageMagick | Felix | {1} | 2 | 100 |
3. | Array View | More options for online generation of Overlay image (Brightness, Gamma) | Felix | {2} | 2 | 100 |
1. | Backend | Update ArrayLayouts | Alu, MD | {1} | 4 | 100 |
2. | ClusterViewer | Export | Thasso | {1} | 100 | |
3. | ClusterViewer | Graph plots | Thasso | {2} | 100 | |
4. | ClusterViewer | View partition clusters | Thasso | {2} | 100 | |
5. | BRIDGE | KEGG Pathway viewer | Alu | {1} | 100 | |
7. | Doku | ADF header doku anpassen | MD | {2} | 100 |
Bereich | Feature | Entwickler | Prioritaet | geschaetzter Aufwand (*10 WS) | Entwicklungsstand (%) | |
1. | BRIDGE | Integration mit gendb smeliloti machen | Alu | {1} | 2 | 100 |
3. | Experiment | Ein array sollte mehreren Faktor-Values zuzuordnen sein | Felix | {1} | 2 | 100 |
4. | Experiment | Ein Experiment creation wizard | Felix, Thasso | {2} | 2 | 100 |
5. | Visualization | Java-heatmap applet | Thasso | {1} | 2 | 100 |
Bridge Integration
Hierzu gibt es ein script: CVS1/bioinfo/BRIDGE/share/exec/link_emma2_gendb.pl es ist im CVS
- man braucht einen zugang zu einem Gendb smeliloti project
Ein Widget zur auswahl von annotationseigenschaften sollte dem Benutzer die moeglichkeit geben, Annotations eigenschaften wie EC nummern, COG kategorien position im genom etc. auszuwaehlen die der analysefunktion als zusatzinfos mitgegeben werden.
- Koennnte zum beispiel einfach auf farben in plots gemapt werden.
Experiment
Das anlegen eines experiments mit faktoren und values ist noch zu kompliziert. Es sollte einen wizzard zum anlegen geben. Die seite wie sie jetzt ist kann man fuer erfahrene Benutzer und zum editieren belassen.
Basisfunktionalitaet
Bereich | Feature | Entwickler | Prioritaet | geschaetzter Aufwand (*10 WS) | Entwicklungsstand (%) | Abhaengigkeit (Punkt) | |
1. | Datenimport | Lims2EMMA2 import Imagene | Tim | {1} | 5 | 100 | |
2. | Experiment | Anlegen, Editieren | Felix | {1} | 2 | 100 | |
3. | Arrays | Ansicht der Bilder | Felix | {2} | 2 | 100 | 1 |
4. | Plots | xy-scatterplots | Thasso, MD | {1} | 2 | 100 | |
5. | Plots | MA-plots | Thasso, MD | {1} | 2 | 100 | 4,6 |
6. | Pipeline | Normalisieren | Alu, MD | {1} | 1 | 100 | |
7. | Pipeline | Normalisierungs vorschau | Alu, MD | {3} | 2 | 100 | |
8. | Pipeline | Signifikanztest | MD | {3} | 2 | 100 | 6 |
9. | Zugriffskontrolle | Rollen und Rechte | TEAM, Lutz | {3} | 6 | 100 | |
10. | Datenansicht | Tabellensicht, beliebige Messdaten mit Sortieren und Export | Sebastian | {1} | 3 | 100 | |
11. | Repository | Suchen und Sortieren nach Experimenten, Arrays etc. | - | {3} | 2 | 50 |