ecogeographic land characterization for cwr diversity and gap analysis workshop - geoqual tool
TRANSCRIPT
GEOQUAL
Mauricio Parra QuijanoEcogeographic land characterization for CWR diversity and gap analysis Training workshop 26–27 February 2014, Room UG08, Learning Centre, University of Birmingham
Tool
Interface
CAPFITOGEN tools
• GEOQUAL
• ELCmapas
• ECOGEO
• Representa
• Colnucleo
• DIVmapas
• FIGS_R
Why should you evaluate the geo-
referencing quality of your p data?
Real location
x km
1030
75
100
Coordinates
10 km
5 oC
6 oC
7 oC8 oC 9 oC
1 km
Inaccurate geo-referencing effects
Geo-referencing is not only coordinates
Nivel Valor
ORIGCTY CRI
ADM1 Punta Arenas
ADM2 Buenos Aires
ADM3 NA
ADM4 NA
Nivel Valor
ORIGCTY CRI
ADM1 Punta Arenas
ADM2 Pérez Zeledón
ADM3 NA
ADM4 NA
Collecting site description
GEOQUAL
• Is a tool to assign a quality assessment value to each accession which has coordinates (mandatory) and locality description.
•User have to introduce data to be evaluated in the modified FAO-Bioversity2012 format.
•GEOQUAL assesses three parameters, COORQUAL, LOCALQUAL and SUITQUAL along with other subparameters.
•Parameters are summarized to obtain the parameter TOTALQUAL (0-60) orTOTALQUAL100 (0-100).
0 100
TOTALQUAL100: Unified quality value of the georeferenced collecting sites80
COORQUAL
Intrinsic quality value of the coordinates. Values range from 0 to 20. Subparameters:
• ERRORES: Coordinates values out of the expected range
• PRECIS: Coordinates precision on degrees, minutes, seconds (only for sexagesimalformat)
• GEORBLE: The most detailed collecting site description, the better the coordinates are
• INTERTEMP: Precision on coordinates according to the collecting year
• GEOREFMETH: Precision according to the method used to obtain the coordinates
SUITQUAL
This parameter assigns quality values according to the suitability to grow plants in the collecting sites. Values range from 0 to 20.
• It considers differences between crop and wild plants (SAMPSTAT)
• It uses information about land use from the Global Land Cover map(1 km)
SUITQUAL
> 30 km
10-20 km
5-10 km
0-1 km
On land
0 20
Distance to land
SUITQUAL
Low resolution
High resolution
zoom!
LOCALQUALThis parameter compares collecting site description from the passport data and the site extracted from coordinates.
• Administrative information comes from GADM (www.gadm.org)
• Comparison is achieved between chain of characters (string), obtaining a distance (Levenshtein). Then a threshold is fixed for a number of insertions, deletions or changes. Following this threshold, we assume that one string is equivalent to another. “agrep” function from R
• According to the number of matches within each administrative level, a value is assigned from 0 to 20.
Level Coordinates1 Coordinates 2
ORIGCTY ISO
ADM1 NAME1 VARNAME1
ADM2 NAME2 VARNAME2
ADM3 NAME3 VARNAME3
ADM4 NAME4 VARNAME4
LOCALQUAL
TOTALQUAL and TOTALQUAL100
TOTALQUAL = COORQUAL + SUITQUAL + LOCALQUAL
VALUES RANGE FROM 0 TO 60
TOTALQUAL100 = (TOTALQUAL*60) /100
0 98
GEOQUAL on Information Systems913 selected
accessions
GEOQUAL en SIERFE722 selected
accessions
