Barley

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  Breeders Datafarm

Data Submission

  • Data templates are Excel, .txt, or .csv worksheets with column headers for the data T3 requires or accepts.
  • The example values can be replaced with your own. Notes about the restrictions for valid data are included in the templates.
  • Once populated, the files can be loaded into T3 using the Curate menu, which is available to registered Sandbox users.
  • To make updates or corrections, edit your file and reload.
  • Please use the wheat or barley Funnyfarm database for test-loading your files. When they're ready, click here to submit them to the T3 Curator for loading into the official database.

Instructions - Rules for filling in the templates, and sequence of submission
Tutorials
T3 Lesson1 LineUpload
T3 Lesson2 Phenotype
T3 Lesson2 Phenotype~
T3 Lesson2 Phenotype
T3 Lesson2 Phenotype2012
T3 Lesson2 Phenotype old
T3 Lesson3 GenotypeUpload
T3 Lesson3 GenotypeUpload~
T3 Line Panels
T3 line panels

Data Templates

Topic Link Version Contents
Germplasm Lines Wheat24Apr15 Name, synonyms, pedigree for wheat
Barley11Dec14 Name, synonyms, pedigree for barley
Genetic Characters13Aug14 Genes, QTLs, trait-linked markers, market class
Name conversion macros29Sep11 Excel spreadsheet to convert germplasm names to T3 formatted names.
Phenotyping Traits13Feb13 Please discuss with the curators before adding a new trait.
Trial description04Dec12 Location, planting date, experimental design...
Trial means03Dec15 Values for all traits for test lines and checks, summary statistics
Plot-Level Results22Jul13 Trait values for each plot
Fieldbook25Jun13 Field map
Canopy Spectral
Reflectance
CSR System15Feb13 Instrument annotation
CSR description27Feb13 Description of the CSR experiment
CSR results02Jan13 Data file format
Genotyping Experiment description13Sep13 Platform, software, manifest file, experiment details...
Line translation17Apr12 Line Name and Trial Code
Illumina data03Jan13 alleles for lines and markers (coded as A or B)
GBS data11Apr14 alleles for lines and markers (coded as ACTG, N = missing, H = heterozygous)
GBS data, over 100K markers07Nov14 instructions for loading large GBS data sets using the command line
DArT data20Jun13 alleles for lines and markers (coded as 1 = present, 0 = absent)
Experiment results (1D)16Sep11 1D table of alleles for lines and markers
Markers Sequence Generic21Feb14 Marker sequences and allele definitions
Sequence Illumina OPA16Sep11 Markers from Illumina Manifest, Golden Gate OPA format
Sequence Illumina Infinium21Aug12 Markers from Illumina Manifest, Infinium HD format
Markers from DArT17Jun13 Markers from Diversity Array Technologies
Gene function25Oct11 Sequence annotations and name synonyms
Genetic Character markers11Dec14 Trait-linked markers named for their associated gene or QTL
Map location16Sep11 Genetic maps

In 2009 the Toronto International Data Release Workshop agreed on a policy statement about prepublication data sharing. Accordingly, the data producers are making many of the datasets in T3 available prior to publication of a global analysis. Guidelines for appropriate sharing of these data are given in the excerpt from the Toronto Statement.

I agree to the Data Usage Policy as specified in Toronto Statement.