PPA, Phenomics, Plant imaging - SPECIM FX10 Hyperspectral, Dataset ID: 453278, Raw data

Faba bean, fava bean, SARDI_Dr Lachlan Lake (field trial), SARDI_Dr Julie Hayes (prepared samples)

Dataset size is: 54.78 GiB

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Data and Resources

This data is made available openly under a Creative Commons Attribution license. Please see the initiative Data Policy for attribution information.

Additional Info Show Blank Fields

Field Value
Resource Permissions organization_member_after_embargo:date_of_transfer_to_archive:365:ppa-consortium-members
Access Control Date 2025-01-01
Access Control Mode date
Sequence Data Type hyperspectral
analytical_platform SPECIM FX10 Hyperspectral
base_url https://downloads-qcif.bioplatforms.com/bpa/ppa_staging/hyperspect/BPAOPS-1504/20231027_APPF_453278/
bioplatforms_dataset_id 102.100.100/453278
bioplatforms_project Plant Protein Atlas (PPA)
class Magnoliopsida
collector Ruwan Lenorage, SARDI
common_name Faba bean, fava bean
country Australia
data_context Plant imaging - SPECIM FX10 Hyperspectral
data_type Main dataset
date_of_transfer 2023-10-31
date_of_transfer_to_archive 2023-10-31
description SPECIM FX10 Hypersptral data
experiment_type Field trial
facility APPF
facility_project_code 0676_Faba_bean__BPA_Plant_protein_atlas_LaTrobe
family Fabaceae
file_description The samples of the faba beans together with the corresponding barcodes were scanned using the FX10 hyperspectral camera (Specim, Oulu, Finland). It captured the visible and near infrared images from 400 nm to 1000 nm with 5.5 nm FWHM. The illumination was provided by two 3 × 1 halogen light arrays on the sides of the camera. The camera was equipped with a 38° lens and set to 1024 pixels per line. The working distance from the lens to the conveying tray was 160 mm, resulting in 0.13 mm horizontal spatial resolution. The resulting files are zipped and the contains: (1) a calibrations directory, which includes information about the bpr and radiometric calibrations for the scan. (2) capture directory, which inclues a log file, ENVI header file and the raw data each for the white reference, dark reference and the scan itself. (3)manifest.xml file. (4) metadata directory, which contains an XML file and associated XSL stylesheet with information about the scan, including frame rate, sensor temperatures etc, (5) properties.xml file; describing the file naming structure, (6) a false colour PNG image which is a sample view of 3 chosen bands from the raw data.
genus Vicia
initiative_code PPA
metadata_revision_date 2023-10-27
metadata_revision_filename Sample_ID_Faba_bean_2023-06-15_120_samples_forQCIF.xlsx
omics Phenomics
order Fabales
phenomics_facility Australian Plant Phenomics Facility
phylum Streptophyta
planting_season 2022
raw_or_analysed_data Raw data
sample_collection_type Field trial
sample_type Mature grain
scientific_name Vicia faba
species faba
specimen_custodian SARDI_Dr Lachlan Lake (field trial), SARDI_Dr Julie Hayes (prepared samples)
taxon_id 3906
taxonomic_group Plant
ticket BPAOPS-1504
tissue Mechanically de-hulled grain pieces (transcriptome), mechanically de-hulled and finely milled grain (proteome, metabolome, fibre)
tissue_preservation Snap frozen (transcriptome, metabolome)
tissue_preservation_temperature -80°C (transcriptome, metabolome), 4°C (proteome, fibre)
variety_commercial Y
wild_captive Cultivated