Data Package Metadata View Summary

Systems Ecology Lab Bajada Site: Land Cover Spectral Indices from Creosote & Mesquite Shrubland using Multi Color Space from an RGB Camera 2010-2021

General Information

Data Package:

Local Identifier:

knb-lter-jrn.210408004.2

Title:

Systems Ecology Lab Bajada Site: Land Cover Spectral Indices from Creosote & Mesquite Shrubland using Multi Color Space from an RGB Camera 2010-2021

Alternate Identifier:

DOI PLACE HOLDER

Abstract:

This dataset contains spectral indices derived from a camera mounted on top of the "Bajada" flux tower at the Jornada Experimental Range in southern New Mexico U.S.A. Camera images were collected daily beginning in 2010 and several spectral indices were extracted and calculated from replicate regions of interest (ROIs) in the camera field of view, including 5 focused on honey mesquite (Prosopis glandulosa) and 5 focused on creosote (Larrea tridentata) shrubs. This dataset is complete.

Short Name:

sel_bajadatower_cams_spectralind

Publication Date:

2024-06-06

Language:

English

For more information:
Visit:	https://jrn.lternet.edu
Visit:	DOI PLACE HOLDER

Time Period

Begin:

2010-06-16

End:

2021-05-28

People and Organizations
Contact:	Information Manager (Jornada Basin LTER Program) [ email ]
Creator:	Beamon, William (University of Texas at El Paso, graduate student)
Creator:	Tweedie, Craig (University of Texas at El Paso)
Associate:	Mauritz, Marguerite (University of Texas at El Paso, associate scientist)
Associate:	Ramirez, Gesuri (University of Texas at El Paso, field manager)
Associate:	Hanggitto, Muhammad (University of Texas at El Paso, field technician)
Associate:	Jaimes, Aline (University of Texas at El Paso, graduate student, graduate student)
Associate:	Laney, Christine (University of Texas at El Paso, graduate student)
Associate:	Luna, Robin Naomi (University of Texas at El Paso, graduate student)
Associate:	Gonzalez, Libia (University of Texas at El Paso, graduate student)
Associate:	Herrera, Jose (University of Texas at El Paso, graduate student)

Data Entities
Data Table Name:	Spectral indices table
Description:	Spectral indices and associated flags derived from imagery from camera 2 on the bajada flux tower.
Other Name:	ROI document
Description:	A Word doc with a figure displaying the camera image ROIs (regions of interest) extracted and analyzed in this dataset.

Detailed Metadata

Data Entities

Data Table


Data:	https://pasta-s.lternet.edu/package/data/eml/knb-lter-jrn/210408004/2/f4ef199757bb66e3d9d4f1c6f9facf83
Name:	Spectral indices table
Description:	Spectral indices and associated flags derived from imagery from camera 2 on the bajada flux tower.
Number of Records:	647700
Number of Columns:	14

Table Structure

Object Name:

jrn408004_sel_bajada_towercam_spectra.csv

Size:

83351914 byte

Authentication:

0aec56c1b909f9ced74118e773c5b003 Calculated By MD5

Text Format:

Number of Header Lines:

Number of Foot Lines:

Record Delimiter:

Orientation:

column

Simple Delimited:

Field Delimiter:	,
Quote Character:	"

Table Column Descriptions

Batch file

Image

Camera

Year

Date

Category

colorspace

ROI

Spectral.Data

value

mean.value

sd.value

outlier.2sd

outlier.3sd

Definition:

Images manually grouped into processing batches based on noticeable shifts in image alignment

Filename of image

Camera number from bajada EC Tower (1 of 4 cameras)

Year of image

Date of image collection at solar noon (standard time)

Landcover label for each ROI within image data is derived from

Colorspace used for index extraction: RGB(red, green, blue), HSV (hue, saturation, value), Lab ("L" lightness, "a" Red/Green, "b" Blue/Yellow)

Section of image enclosed for data extraction: ROI 1-5 (Creosote), ROI 6-10 (Mesquite), ROI 11 (Whiteboard), ROI 12 (Landscape)

Image color space parameter data types, derived from ROIs and computed by Matlab program image processing. Test.L.a...a..1..L...2550 is an experimental index derived from the Lab colourspace (=a*(1+(L*-100)/2550)); pctG and pctR are equivalent to the commonly used GCC and RCC indices.

Daily value of spectral index within ROI (units defined in Spectral.Data)

Annual mean value of parameter averaged from ROIs in image (units defined in Spectral.Data)

Annual standard deviation of parameter averaged from ROIs in image (units defined in Spectral.Data)

Identify if daily ROI in value column is outside 2 standard deviations of annual mean (mean.value). Yes indicates outlier value, No indicates value within 3 SD.

Identify if daily ROI in value column is outside 3 standard deviations of annual mean (mean.value). Yes indicates outlier value, No indicates value within 3 SD.

Storage Type:

string

integer

dateTime

string

integer

string

float

boolean

Measurement Type:

nominal

interval

dateTime

nominal

interval

nominal

ratio

nominal

Measurement Values Domain:

Definition

One of 4 CSV filenames

Definition

Image filename

Unit	number
Type	integer

Format	YYYY
Precision	1

Format	YYYY-MM-DD
Precision	1

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Creosote
Definition	ROI contains Creosote shrubland
Source

Code Definition

Code	Mesquite
Definition	ROI contains Mesquite
Source

Code Definition

Code	Landscape
Definition	ROI contains a landscape view
Source

Code Definition

Code	Whiteboard
Definition	ROI contains the reference whiteboard
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	RGB
Definition	RGB colorspace (red, green, blue)
Source

Code Definition

Code	HSV
Definition	HSV colorspace (hue, saturation, value)
Source

Code Definition

Code	Lab
Definition	Lab colorspace (L=lightness, a=Red/Green, b=Blue/Yellow)
Source

Unit	number
Type	integer

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	AnyColor
Definition	AnyColor (ratio)
Source

Code Definition

Code	2G_RBi
Definition	2G_RBi (ratio)
Source

Code Definition

Code	redDN
Definition	redDN (intensity)
Source

Code Definition

Code	greenDN
Definition	greenDN (intensity)
Source

Code Definition

Code	blueDN
Definition	blueDN (intensity)
Source

Code Definition

Code	pctR
Definition	pctR (percent)
Source

Code Definition

Code	pctG
Definition	pctG (percent) - equivalent to the commonly used GCC index
Source

Code Definition

Code	pctB
Definition	pctB (percent) - equivalent to the commonly used RCC indices
Source

Code Definition

Code	totalRGB
Definition	totalRGB (intensity)
Source

Code Definition

Code	nNDVI
Definition	nNDVI (ratio)
Source

Code Definition

Code	Hue
Definition	Hue (intensity)
Source

Code Definition

Code	Saturation
Definition	Saturation (intensity)
Source

Code Definition

Code	Value
Definition	Value (intensity)
Source

Code Definition

Code	test.L.a...a..1..L...2550.
Definition	Test.L.a...a..1..L...2550. (ratio) - an experimental index derived from the Lab colourspace (=a(1+(L-100)/2550))
Source

Code Definition

Code	L.
Definition	L. (intensity)
Source

Code Definition

Code	a.
Definition	a. (intensity)
Source

Code Definition

Code	b.
Definition	b. (intensity)
Source

Unit	dimensionless
Type	real

Unit	dimensionless
Type	real

Unit	dimensionless
Type	real

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	yes
Definition	True (yes)
Source

Code Definition

Code	no
Definition	False (no)
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	yes
Definition	True (yes)
Source

Code Definition

Code	no
Definition	False (no)
Source

Missing Value Code:

Accuracy Report:

Accuracy Assessment:

Coverage:

Methods:

Non-Categorized Data Resource

Name:

ROI document

Entity Type:

otherEntity

Description:

A Word doc with a figure displaying the camera image ROIs (regions of interest) extracted and analyzed in this dataset.

Physical Structure Description:

Object Name:

jrn408004_ROIs_analyzed.docx

Size:

2161565 byte

Authentication:

15a16e7989192fc8e4df48c4243e079f Calculated By MD5

Externally Defined Format:

Format Name:

MS-Word

Data:

https://pasta-s.lternet.edu/package/data/eml/knb-lter-jrn/210408004/2/64e678e9f1540623603afc8dc3b5c96d

Data Package Usage Rights

This information is released under the Creative Commons license - Attribution - CC BY (https://creativecommons.org/licenses/by/4.0/). The consumer of these data ("Data User" herein) is required to cite it appropriately in any publication that results from its use. The Data User should realize that these data may be actively used by others for ongoing research and that coordination may be necessary to prevent duplicate publication. The Data User is urged to contact the authors of these data if any questions about methodology or results occur. Where appropriate, the Data User is encouraged to consider collaboration or co-authorship with the authors. The Data User should realize that misinterpretation of data may occur if used out of context of the original study. While substantial efforts are made to ensure the accuracy of data and associated documentation, complete accuracy of data sets cannot be guaranteed. All data are made available "as is." The Data User should be aware, however, that data are updated periodically and it is the responsibility of the Data User to check for new versions of the data. The data authors and the repository where these data were obtained shall not be liable for damages resulting from any use or misinterpretation of the data. Thank you.

Keywords

By Thesaurus:
LTER Core Research Areas	populations
LTER Controlled Vocabulary v1	deserts, plant phenology
none	Creosote, Larrea tridentata, Mesquite, Prosopsis glandulosa, RGB, UTEP, camera, color space, ecosystem dynamics, greenness, image analysis, multispectral, phenocam
Jornada Basin LTER dataset keywords	Systems Ecology Lab
Jornada Basin project names	JRN LTER, Jornada Basin LTER, SEL Bajada, prj 408
Jornada Basin place names	SEL Bajada

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Methods and protocols used in the collection of this data package

Description:

Site description

This dataset contains spectral indices derived from a camera mounted on top of the "Bajada" flux tower at the Jornada Experimental Range in southern New Mexico U.S.A. This study site was established in 2010 to link dryland ecosystem CO2 and H2O fluxes with climate and vegetation dynamics and is maintained and operated by the University of Texas at El Paso’s Systems Ecology Lab (UTEP-SEL). We combine eddy-covariance and biometeorological measurements with direct and proximal remote-sensing observations of vegetation phenology, greenness, and photosynthetic activity. Data collected at this site allows us to link interactions between vegetation and climate dynamics and understand how these interactions drive dryland ecosystem processes. The site is fully networked for real-time data transmission and has contributed to improving ecological cyberinfrastructure and understanding challenges of integrating multiple large datasets.

The site is located in a Chihuahuan desert shrubland on the piedmont slope (bajada) of the San Andreas mountains in the USDA-ARS Jornada Experimental Range, which is a study area for the Jornada Basin LTER program. The dominant shrubs are evergreen Larrea tridentata (Creosote) and winter-deciduous Prosopis glandulosa (Honey Mesquite). Other cover types include Flourensia cernua (tarbush) and patchy occurrences of the grasses Muhlenbergia porteri (Bush muhly) and Dasyochloa pulchella (Fluff grass). The site is occasionally visited by stray domestic cattle, free-ranging introduced Oryx, and other native herbivores (Jack Rabbits, Desert Pronghorn). Soils at the site are Ustic Calciargids and parent material consists of limestone, other sedimentary rock, and some igneous rock.

Camera imagery and derived indices

This study utilized a "phenocam" digital web cameras (webcam model Vx7000, with 1600 x 1200 pixel resolution (2 MP), 58° of horizontal view angle, with a manually fixed focus for the specific experimental area), that was situated in a study area (Latitude: 32.581956, Longitude: -106.635025) with an elevation of 1188m and slope of ~2 degrees. Time lapse images were captured hourly from 700 to 1900 spanning 2011-2021, but only images at solar noon (standard time) were used in this study to avoid complications in digital image analysis caused by sun angle (Gonzalez-Alonso, 2011; Kurc & Benton, 2010). A matlab-based Phenology Analyzer Software (written in-house by Geovany Ramirez) was used to process images for landscape and species-specific ROIs that included only honey mesquite and creosote bush plants (see attached image for ROI locations). Photos were manually observed for recognition of conditions that would disqualify image for use: excessively light or dark images were removed based on brightness values, and images with blockages, obstructions, or discoloration were manually removed. Shifts to images fixed field of view were accounted for and by separating images into batches based on image position. Post analysis indices annual mean and standard deviation were calculated for optional filtering and removal of outlier values outside of 2 standard deviations from the mean. Images were processed with the color space options: RGB, HSV and L*a*b*, and in each color space a variety of indices were calculated.

References

Gonzalez Alonso, L. 2011. Development of a low-cost network of webcams for monitoring plant phenology in a Chihuahuan Desert shrubland (MSc Thesis). University of Texas at El Paso.

Kurc, S. A., & Benton, L. M. (2010). Digital image-derived greenness links deep soil moisture to carbon uptake in a creosotebush-dominated shrubland. Journal of Arid Environments, 74(5), 585-594.

People and Organizations

Publishers:

Organization:

Environmental Data Initiative

Email Address:

info@edirepository.org

Web Address:

https://edirepository.org

Id:

https://ror.org/0330j0z60

Creators:

Individual:

William Beamon

Organization:

University of Texas at El Paso

Position:

graduate student

Email Address:

wwbeamon@miners.utep.edu

Individual:

Craig Tweedie

Organization:

University of Texas at El Paso

Address:

El Paso, TX U.S.A.

Contacts:

Organization:

Jornada Basin LTER Program

Position:

Information Manager

Address:

P.O. Box 30003; MSC 3JER New Mexico State University,

Las Cruces, NM 88003-8003 U.S.A.

Phone:

575-322-2430

Email Address:

jornada.data@nmsu.edu

Web Address:

https://lter.jornada.nmsu.edu/information-management/

Associated Parties:

Individual:	Marguerite Mauritz
Organization:	University of Texas at El Paso
Role:	associate scientist

Individual:

Gesuri Ramirez

Organization:

University of Texas at El Paso

Address:

El Paso, TX U.S.A.

Role:

field manager

Individual:	Muhammad Hanggitto
Organization:	University of Texas at El Paso
Role:	field technician

Individual:	Aline Jaimes
Organization:	University of Texas at El Paso
Position:	graduate student
Role:	graduate student

Individual:	Christine Laney
Organization:	University of Texas at El Paso
Role:	graduate student

Individual:	Robin Naomi Luna
Organization:	University of Texas at El Paso
Role:	graduate student

Individual:	Libia Gonzalez
Organization:	University of Texas at El Paso
Role:	graduate student

Individual:	Jose Herrera
Organization:	University of Texas at El Paso
Role:	graduate student

Metadata Providers:

Organization:

Jornada Basin LTER Program

Position:

Jornada Basin LTER program

Address:

P.O. Box 30003; MSC 3JER New Mexico State University,

Las Cruces, NM 88003-8003 USA

Email Address:

jornada.lter@nmsu.edu

Web Address:

https://lter.jornada.nmsu.edu

Id:

https://ror.org/05976ta47

Temporal, Geographic and Taxonomic Coverage

Temporal, Geographic and/or Taxonomic information that applies to all data in this dataset:

Time Period

Begin:

2010-06-16

End:

2021-05-28

Geographic Region:

Description:

Eastern Bajada: Study occurred in the eastern bajada geomorphic zone in the Jornada Basin. More precise geographic coordinates for this study may be requested from the JRN LTER Data Manager (jornada.data@nmsu.edu).

Bounding Coordinates:

Northern:	32.689571	Southern:	32.531184
Western:	-106.684611	Eastern:	-106.590363

Project

Parent Project Information:

Title:

The SEL Bajada site at Jornada Basin

Personnel:

Individual:

Dr. Craig Tweedie

Address:

500 West University Avenue,

University of Texas at El Paso,

El Paso, TX 79968 United States

Phone:

915-747-5000 (voice)

Email Address:

ctweedie@utep.edu

Role:

Principal Investigator for Cyber-ShARE and JRN LTER

Individual:

Dr. Ann Gates

Address:

500 West University Avenue,

University of Texas at El Paso,

El Paso, TX 79968 United States

Phone:

915-747-5000 (voice)

Email Address:

ctweedie@utep.edu

Role:

Principal Investigator for Cyber-ShARE

Individual:

Dr. Niall Hanan

Address:

P.O. Box 30003, MSC 3JER,

New Mexico State University,

Las Cruces, NM 88003-8003 United States

Phone:

575-646-3335 (voice)

Email Address:

nhanan@nmsu.edu

Role:

Principal Investigator (LTER)

Abstract:

The Systems Ecology Lab Bajada site is jointly funded under the NSF CREST Program (Centers of Research Excellence in Science and Technology), with support from the Jornada Basin LTER program. The JRN LTER is part of a national network of long-term ecological research sites funded by the US National Science Foundation (NSF). The JRN LTER program has been continuously funded since 1982 to develop general principles governing changes between grassland and shrubland ecosystems based on ong-term data collected in the Chihuahuan Desert.

Funding:

The SEL Bajada site is supported by CREST: Cyber-ShARE Center of Excellence awards, Phase I (734825) and II (1242122), from the National Science Foundation. The Cyber-ShARE Center of Excellence is based at the University of Texas at El Paso. The JRN LTER program is funded by the National Science Foundation under award DEB 2025166 .

Maintenance

Maintenance:

Description:	complete
Frequency:	notPlanned

Other Metadata

Additional Metadata

additionalMetadata
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        |___element 'metadata'
        |     |___text '\n         '
        |     |___element 'unitList'
        |     |     |___text '\n            '
        |     |     |___element 'unit'
        |     |     |     |  \___attribute 'id' = 'dimensionless'
        |     |     |     |  \___attribute 'name' = 'dimensionless'
        |     |     |     |  \___attribute 'unitType' = 'dimensionless'
        |     |     |     |___text '\n               '
        |     |     |     |___element 'description'
        |     |     |     |     |___text 'a designation asserting the absence of an associated unit'
        |     |     |     |___text '\n            '
        |     |     |___text '\n            '
        |     |     |___element 'unit'
        |     |     |     |  \___attribute 'id' = 'number'
        |     |     |     |  \___attribute 'name' = 'number'
        |     |     |     |  \___attribute 'unitType' = 'dimensionless'
        |     |     |     |___text '\n               '
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        |     |     |     |___text '\n            '
        |     |     |___text '\n         '
        |     |___text '\n      '
        |___text '\n   '

Copyright 2024 Environmental Data Initiative. This material is based upon work supported by the National Science Foundation under grants #2223103 and #2223104. Any opinions, findings, conclusions, or recommendations expressed in the material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. Please contact us with questions, comments, or for technical assistance regarding this web site or the Environmental Data Initiative. Please read our privacy policy to know what information we collect about you and to understand your privacy rights.

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Data Package Metadata View Summary

Systems Ecology Lab Bajada Site: Land Cover Spectral Indices from Creosote & Mesquite Shrubland using Multi Color Space from an RGB Camera 2010-2021

Data Entities

Data Table

Non-Categorized Data Resource

Data Package Usage Rights

Keywords

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Site description

Camera imagery and derived indices

References

People and Organizations

Temporal, Geographic and Taxonomic Coverage

Project

Parent Project Information:

Maintenance

Additional Metadata

Recently Added

Recently Updated

Data Package Metadata View Summary

Systems Ecology Lab Bajada Site: Land Cover Spectral Indices from Creosote & Mesquite Shrubland using Multi Color Space from an RGB Camera 2010-2021

+/- Data Entities

Data Table

Non-Categorized Data Resource

+/- Data Package Usage Rights

+/- Keywords

+/- Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Site description

Camera imagery and derived indices

References

+/- People and Organizations

+/- Temporal, Geographic and Taxonomic Coverage

+/- Project

Parent Project Information:

+/- Maintenance

+/- Additional Metadata

Data Entities

Data Package Usage Rights

Keywords

Methods and Protocols

People and Organizations

Temporal, Geographic and Taxonomic Coverage

Project

Maintenance

Additional Metadata