Difference between revisions of "ModENCODE Analysis & metadata discussion"
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It would be good to decide on a nomenclature as there are lots of modENCODE projects that we are going to extract data from, and the ?Analysis class might get a bit confusing. | It would be good to decide on a nomenclature as there are lots of modENCODE projects that we are going to extract data from, and the ?Analysis class might get a bit confusing. | ||
− | We could then group all the experiments together under some parent ?Analysis | + | We could then group all the experiments together under some parent ?Analysis as there are some more complicated examples out there. |
Example | Example |
Revision as of 08:33, 3 June 2009
Please edit/add to this page regarding the storage of meta data and the nomenclature we should adopt for ?Analysis/?Condition objects in the AceDB database.
?Analysis Naming
-- this is my suggestion pad --
modEncode_<ID>_<PI>_<type>
Where
ID = modencode experiment ID (1st Column in download table)
PI = PI surname responsible for projects
Type = The data type e.g. RACE, 454_seq, Chip_Chip etc. etc.
Example ------- 515 CEUP1 vetted and released Caenorhabditis elegans Piano would give an analysis object named: modENCODE_515_Piano_RACE
It would be good to decide on a nomenclature as there are lots of modENCODE projects that we are going to extract data from, and the ?Analysis class might get a bit confusing.
We could then group all the experiments together under some parent ?Analysis as there are some more complicated examples out there.
Example ------- Waterston data. 485 Waterston_Reinke_JKL4-NDT unvetted Caenorhabditis elegans Waterston 484 Waterston_Reinke_L1-NDT unvetted Caenorhabditis elegans Waterston 481 Waterston_Reinke_GON unvetted Caenorhabditis elegans Waterston 479 Waterston_Reinke_N2LE unvetted Caenorhabditis elegans Waterston 478 Waterston_Reinke_MALE unvetted Caenorhabditis elegans Waterston 476 Waterston_Reinke_N2EE unvetted Caenorhabditis elegans Waterston 475 Waterston_Reinke_YA unvetted Caenorhabditis elegans Waterston 474 Waterston_Reinke_L3 unvetted Caenorhabditis elegans Waterston 473 Waterston_Reinke_L4 unvetted Caenorhabditis elegans Waterston 472 Waterston_Reinke_L2 unvetted Caenorhabditis elegans Waterston 448 Waterston-CelegansIntronsS3-2008-12 -02 vetted and released Caenorhabditis elegans Waterston 447 Waterston-CelegansIntronsS2-2008-12 -02 vetted and released Caenorhabditis elegans Waterston 446 Waterston-CelegansIntronsS1-2008-12 -02 vetted and released Caenorhabditis elegans Waterston 445 Waterston-CelegansIntronsS4-2008-12 -02 vetted and released Caenorhabditis elegans Waterston 438 mid-L4_20dC_36hrs_post-L1 RNAseq.2 unvetted Caenorhabditis elegans Waterston 433 Young_Adult_25dC_46hrs_post-L1 RNAs eq unvetted Caenorhabditis elegans Waterston 378 mid-L3_20dC_25hrs_post-L1 RNAseq unvetted Caenorhabditis elegans Waterston 333 mid-L2_20dC_14hrs_post-L1 RNASeq unvetted Caenorhabditis elegans Waterston