Filters: Tags: DATA INTEROPERABILITY (X) > Types: OGC WFS 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,
The Database was built to enable data integration across sources, as well as to support program planning and observational network design. The Imiq Data Portal provides a snapshot of available hydroclimate data – a map-based view of where , what , and when data have been obtained. Users can submit a custom data query, specifying variable of interest, geographic bounds, and time step. Imiq will aggregate and export data records from multiple sources in a common format, with full metadata records that provide information about the source data.
Categories: Data;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ABLATION,
ABLATION,
ACTIVE LAYER,
ACTIVE LAYER,
ALBEDO,
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,
The Imiq Hydroclimate Database houses hydrologic, climatologic, and soils data collected in Alaska and Western Canada from the early 1900s to the present. This database unifies and preserves numerous data collections that have, until now, been stored in field notebooks, on desktop computers, as well as in disparate databases. Synthesizing and analyzing the large-scale hydroclimate characteristics of this important climatic region have been made easier with this searchable database. The data, originally collected in a Microsoft SQL Server 2008 relational database, has been migrated to an open source PostgreSQL and PostGIS environment. The Imiq Data Portal provides public access to portions of the Imiq Hydroclimate...
Categories: Data,
Project;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ABLATION,
ABLATION,
ACTIVE LAYER,
ACTIVE LAYER,
ALBEDO,
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,
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,
This R code (eggs.R) inputs the quality controlled nest card data and (1) performs additional quality control on the egg code data, (2) reformat the eggs data into a tidy file of egg observations, (3) summarizes egg data into yearly means of initiation and hatch date based on incubation model, and (4) writes csv files for tidy egg data (eggs.csv) and yearly nest stats (yearstats.csv).
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,
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,
Executive Summary and Table of Contents for the “Hydroclimate Observations in Arctic Alaska: Analysis of Past Networks and Recommendations for the Future” report. This report was produced by the Hydroclimatological data rescue, data inventory, network analysis, and data distribution project.
Categories: Data;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ABLATION,
ABLATION,
ACTIVE LAYER,
ACTIVE LAYER,
ALBEDO,
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,
The Arctic Landscape Conservation Cooperative (LCC) and the North Slope Science Initiative have both identified the importance of synthesizing and disseminating existing climate and hydrology data as well as improving the design of climate and hydrologic monitoring networks to meet management and research needs. We have partnered with the Arctic LCC to address this issue. During this project we designed a geodatabase called Imiq, inventoried hydrologic, climate, and related datasets, and populated the Imiq database with both data and metadata. Finally, we analyzed some of the spatial characteristics of the existing hydroclimate data and the observational network structure, in an effort to inform the development...
Categories: Data;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: ABLATION,
ABLATION,
ACTIVE LAYER,
ACTIVE LAYER,
ALBEDO,
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