Filters: Tags: DATA MANAGEMENT/DATA HANDLING (X) > Types: OGC WMS Layer (X)
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This R code (Nest_Cards_QC.R) is used to process the raw legacy nest card data (1985 - 2019) and produce the quality controlled legacy nest card data for analysis and sharing. This code does not quality control the double searched plots (R2 plots in 1995-99), which is done in the file ‘PrepData.R’. Basic operations include transforming missing value to a common code, transforming other variable to match the data dictionary for nest cards, and resolving non-unique observer initials. The code requires the raw data (“1985-2019_Nest Cards_10-24-19_cleaned.xlsx”) and the table of observer names (“Observer Names_1985-2019_10-24-19.xlsx”). The code writes the QC nest card file “Nest_Cards_1985_2019_QC.csv”. Mostly obseration...
Categories: Data,
Software;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
Water availability, distribution, quality and quantity are critical habitat elements for fish and other water-dependent species. Furthermore, the availability of water is also a pre-requisite for a number of human activities. The density of weather and hydrology observation sites on the North Slope is orders of magnitude less than in other parts of the U.S., making it difficult to document hydrologic trends and develop accurate predictive models where water is a key input. The information that does exist is scattered among many entities, and varies in format. This multi-year data rescue effort project brings together these scarce and scattered hydrology data sets, including high-priority datasets held by the Bureau...
Categories: Data;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ARCHIVING,
ARCHIVING,
Academics & scientific researchers,
Arctic Landscape Conservation Cooperative data.gov,
CATALOGING,
R code that takes in the nest capture history data (chdata.csv), reformats it for model fitting in Program Mark via the R package RMark. A series of models of increasing complexity are fit and compared using AIC. Output is written to text files for each model but is generally not used or saved. Code can be run to generate model results and R workspaces/ object to inspect parameter estimates. The primary purpose of this code is to explore model structures for predicting detection and as an attempt to reproduce historically used parameter estimates in past nest plot reports (e.g., Fischer et al. 2017 and earlier). Results from ‘Model 7’ are most similar to detection estimates used in the past.
Categories: Data,
Software;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
BIOLOGICAL CLASSIFICATION,
BIOLOGICAL CLASSIFICATION,
This R code (YKDsalinity_QC.R) is used to process the raw legacy salinity data for fixed and random plots (2006 - 2019) and produce the quality controlled legacy salinity data for analysis and sharing (YKDsalinity_QC.csv). Basic operations include transforming missing value to a common code, transforming other variables to match the data dictionary, and cleaning spatial location issues. Of special note is that this QC process discover significant error in location data due to a variety of reasons so the random plot centers are added to the data table and should be used for analysis. The code requires the raw data (“Official_YKD.SALINITY.DATA.MASTER.2020.csv”), a definition of the nest plot study area (“NestPlotStudyAreaBoundary.geojson”),...
Categories: Data,
Software;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: BIOSPHERE,
BIOSPHERE,
BIOSPHERE,
DATA INTEROPERABILITY,
DATA INTEROPERABILITY,
This project facilitates research within the North Slope science community through improved data sharing and collaboration. This is achieved through the development and implementation of secure data services (SDS) protocols within the North Slope Science Catalog. Implementation included: 1)Determine SDS protocols that will encourage data provider participation. These might include use request, login authorization, prescribed distribution intervals, use agreement and distribution tracking. Initial prototype would consider Migratory Bird Management requirements; 2)Develop Catalog web based SDS implementation that would promote protocols as identified above; This would require cooperative work between data providers...
R code that takes in the nest capture history data (chdata.csv), reformats it for model fitting in the Bayesian MCMC software JAGS via the R package jagsUI. Various generalized linear mixed models are fit using a Huggins two occasion capture history model structure as in Program Mark. A series of models of increasing complexity are fit and compared using DIC. Model text is written to text files for each model but is generally not used or saved. Posteriors are saved as Rworkspaces or written to text files for use in population estimation (nostpop.R). Code can be run to generate model results and R workspaces/objects to inspect parameter estimates. The primary purpose of this code is to compare various mixed model...
Categories: Data,
Software;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
BIOLOGICAL CLASSIFICATION,
BIOLOGICAL CLASSIFICATION,
Water availability, distribution, quality and quantity are critical habitat elements for fish and other water-dependent species. Furthermore, the availability of water is also a pre-requisite for a number of human activities. The density of weather and hydrology observation sites on the North Slope is orders of magnitude less than in other parts of the U.S., making it difficult to document hydrologic trends and develop accurate predictive models where water is a key input. The information that does exist is scattered among many entities, and varies in format. This multi-year data rescue effort project brings together these scarce and scattered hydrology data sets, including high-priority datasets held by the Bureau...
Categories: Data;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ARCHIVING,
ARCHIVING,
Academics & scientific researchers,
Arctic Landscape Conservation Cooperative data.gov,
CATALOGING,
Managers and scientists are working together in a new project to understand and optimally manage conservation lands along the Atlanta and Mississippi Flyways to support continental populations of waterbirds. It will advance the development of an integrated waterbird monitoring and management program to inform decision-makers and resource managers in an adaptive management context, resulting in improved resource contributions toward waterfowl, shorebirds, and long-legged waders. This project uses adaptive management and modeling tin an innovative way that incorporates their management expertise as well as new conservation planning and modeling tools. We are focusing on wetland-dependent migratory birds that use the...
Water availability, distribution, quality and quantity are critical habitat elements for fish and other water-dependent species. Furthermore, the availability of water is also a pre-requisite for a number of human activities. The density of weather and hydrology observation sites on the North Slope is orders of magnitude less than in other parts of the U.S., making it difficult to document hydrologic trends and develop accurate predictive models where water is a key input. The information that does exist is scattered among many entities, and varies in format. This multi-year data rescue effort project brings together these scarce and scattered hydrology data sets, including high-priority datasets held by the Bureau...
Categories: Data;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ARCHIVING,
ARCHIVING,
Academics & scientific researchers,
Arctic Landscape Conservation Cooperative data.gov,
CATALOGING,
This project includes the following tasks: Update the viewer to add the following components from future Blueprint versions and data products: a) Update Blueprint priority layer with future versions, and b) Update indicator charting at level of individual indicators and ecosystems. Develop pixel-level filtering feature: a) Build a user interface to allow users to filter the Blueprint by indicator value, and b) Set up appropriate computing resources, including cloud-hosted virtual machine and software installation. Scope and develop mobile responsive design: a) Investigate and develop strategy to incorporate mobile capability into the Simple Viewer, and b) Build compatible mobile responsive interface. Investigate...
Categories: Data,
Project;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: 2016,
2017,
2018,
ANTHROPOGENIC/HUMAN INFLUENCED ECOSYSTEMS,
AQUATIC ECOSYSTEMS,
The South Atlantic LCC website’s project section will be updated to feature an interactive listing of related projects. Users will be able to browse a full listing, filter on the fly by selecting relevant tags or entering search terms, and view details of individual projects. The applications development will take place against the existing SALCC database in Zoho Creator and the interface will be displayed on the existing https://www.fws.gov/science/catalog Ning site.
Categories: Data,
Project;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: 2012,
ANTHROPOGENIC/HUMAN INFLUENCED ECOSYSTEMS,
AQUATIC ECOSYSTEMS,
Academics & scientific researchers,
Applications and Tools,
The purpose of Landscape Conservation Cooperatives (LCCs) is to inform the management of natural and cultural heritage resources in response to shifts in climate, habitat fragmentation and loss, and other landscape level challenges. The South Atlantic LCC’s mission is to “create a shared blueprint for landscape conservation actions that sustain natural and cultural resources” (South Atlantic LCC 2014) and to this end, has contracted with the Conservation Biology Institute (CBI) to release the first version of the Conservation Blueprint using the Data Basin (databasin.org) platform. The South Atlantic LCC seeks to iteratively refine the Conservation Blueprint and release future versions as necessary to achieve their...
Categories: Data,
Project;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: 2014,
2015,
ANTHROPOGENIC/HUMAN INFLUENCED ECOSYSTEMS,
AQUATIC ECOSYSTEMS,
Academics & scientific researchers,
This R code uses the nest card data (“Nest_Cards_1985_2019_QC.csv”), cumulative observer experience data (“cumnest.csv”), and the output from the detection model to produce nest population estimates for focal species or species groups. Model results used are the the maximum likelihood estimates and covariance matrix from Program Mark for “model 7” or from a Bayesian posterior distribution based on a generalized linear mixed model for detection with random effects for plot, year, and crew. Results from “model 7” are produced only to provide population estimates based on legacy methods as reported in past reports. For final estimates, results from the Bayesian posterior should be used. Result from either model cannot...
Categories: Data,
Software;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
This R code (PrepData.R) is used to process the quality controlled legacy nest card data (1985 - 2019) together with the observer names data to produce a capture history data set plot searched twice in 1995 to 1999. Second searches of plot are defined by the PLOTTYPE = “R2” in the nest cards data. Matches are define by the PREVIOUSOBS and PREVIOUSNEST field in the nest card data set but a large number of quality control issue arise in this process and are resolve as detailed in this code. This code produces a data file “chdata.csv” that defines the capture history for each nest and is used as input to Program MARK and JAGS for model fitting and detection estimation. Basic operations include reconciling species and...
Categories: Data,
Software;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
ANIMALS/VERTEBRATES,
Water availability, distribution, quality and quantity are critical habitat elements for fish and other water-dependent species. Furthermore, the availability of water is also a pre-requisite for a number of human activities. The density of weather and hydrology observation sites on the North Slope is orders of magnitude less than in other parts of the U.S., making it difficult to document hydrologic trends and develop accurate predictive models where water is a key input. The information that does exist is scattered among many entities, and varies in format. This multi-year data rescue effort project brought together scarce and scattered hydrology data sets, including high-priority datasets held by the Bureau of...
Categories: Data,
Project;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ARCHIVING,
ARCHIVING,
Academics & scientific researchers,
CATALOGING,
CATALOGING,
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