how_to:web:createaggregate
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| {{:how_to:web:dse_new_dataset_based_on_sresults.png?nolink&200 |}} | {{:how_to:web:dse_new_dataset_based_on_sresults.png?nolink&200 |}} | ||
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| {{:how_to:web:dse_newly_created_dataset.png?nolink&250 |}} | {{:how_to:web:dse_newly_created_dataset.png?nolink&250 |}} | ||
| - | Once your Identification Dataset has been created, you can see it on the tree, in the left side of the window. | + | Once your Identification Dataset has been created, you can see it on the tree, in the left side of the window. You may need to collapse and expand again the //Identifications// node to see it appear.\\ |
| The white icon let you known that it is not yet validated (becomes green when validated). | The white icon let you known that it is not yet validated (becomes green when validated). | ||
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| Click //OK// to register these annotations. The window closes and the files selection has been annotated as shown below (on the left). Click //Create Dataset//. The generated dataset (below, on the right) will have 2 levels of aggregation: biological group (with the copy/pasted names) and top-level (chosen name for dataset). | Click //OK// to register these annotations. The window closes and the files selection has been annotated as shown below (on the left). Click //Create Dataset//. The generated dataset (below, on the right) will have 2 levels of aggregation: biological group (with the copy/pasted names) and top-level (chosen name for dataset). | ||
| - | {{ :how_to:web:dse_edit_annotations_bio_groups_created.png?nolink&500 |}} | + | {{ :how_to:web:dse_edit_annotations_bio_groups_created.png?nolink&700 |}} |
| + | \\ | ||
| + | \\ | ||
| === Example 2: multiple biological groups and biological samples === | === Example 2: multiple biological groups and biological samples === | ||
| + | Let's take a slightly more complex design, introducing biological replicates for each condition: | ||
| + | |||
| + | | Result file | Peaklist File | Biological replicate | Condition | | ||
| + | | F078594.dat | OVEMB150205_21.raw.mgf | BRep 1 | UPS1 50fmol | | ||
| + | | F078596.dat | OVEMB150205_23.raw.mgf | BRep 1 | UPS1 50fmol | | ||
| + | | F078592.dat | OVEMB150205_25.raw.mgf | BRep 2 | UPS1 50fmol | | ||
| + | | F078590.dat | OVEMB150205_27.raw.mgf | BRep 2 | UPS1 50fmol | | ||
| + | | F078591.dat | OVEMB150205_12.raw.mgf | BRep 1 | UPS1 5fmol | | ||
| + | | F078595.dat | OVEMB150205_14.raw.mgf | BRep 1 | UPS1 5fmol | | ||
| + | | F078597.dat | OVEMB150205_16.raw.mgf | BRep 2 | UPS1 5fmol | | ||
| + | | F078593.dat | OVEMB150205_18.raw.mgf | BRep 2 | UPS1 5fmol | | ||
| + | |||
| + | **Note** | ||
| + | In most of the cases, the definitions go as following:\\ | ||
| + | - biological group = biological condition\\ | ||
| + | - biological sample = biological replicate\\ | ||
| + | - sample analysis = technical replicate\\ | ||
| + | However, these definitions are not strict and you can use and adapt the hierarchy to fit your needs. | ||
| + | |||
| + | * As shown previously (see [[#Example 1: multiple biological groups | example 1]]), choose the result set mapping property and add the //Biological group// column. | ||
| + | * In the toolbar box, now select the //Biological sample// annotation, and add it by clicking on //Add//. | ||
| + | * You can re-arrange the columns order to fit your data table: drag and drop the column headers to move them. | ||
| + | * Copy/paste the relevant columns of your table in the annotation editor. | ||
| + | |||
| + | {{ :how_to:web:dse_edit_annotations_bio_groups_bio_rep.png?nolink&800 |}} | ||
| + | |||
| + | \\ | ||
| + | |||
| + | {{ :how_to:web:dse_edit_annotations_bio_groups_bio_rep_created.png?nolink&300|}} | ||
| + | Click //OK// to register the annotations and see them in the creation panel.\\ | ||
| + | Then click //Create Dataset//.\\ | ||
| + | The generated dataset will have 3 levels of aggregation: | ||
| + | * top-level (name: chosen in creation panel) | ||
| + | * biological groups (names: from annotation editor column) | ||
| + | * biological samples (names: from annotation editor column) | ||
how_to/web/createaggregate.1467724904.txt.gz · Last modified: 2016/07/05 15:21 by 193.48.0.3
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