Exploring Biological Relevance of Environmental Chemistry Observations
Rank sites by EAR
Remove endpoints with specific data quality flags from data
Summary of tox_list
ToxCast Chemical Information
ACC values included with toxEval. See `vignette("Setting up toxEval pa...
Analyze ToxCast data in relation to measured concentrations.
Plot stacked bar charts
clean_endPoint_info
Load and check toxEval data
createLink
Endpoint information from ToxCast
Rank endpoints by category
Explore data in the Shiny Application
EndPoint boxplots
EndPoint boxplots with faceting option
Filter endPoints based on groups and assays.
ToxCast Chemical Information
Get the ACC values for a selection of chemicals
Compute EAR values
Create concentration summary
Plot EAR heat maps
Prepare boxplot data
toxEval helper functions
Biological hits per category
Summary of hits per site/category
Create an interactive map of the data
Grouped Boxplots
Data analysis package for estimating potential biological effects from chemical concentrations in environmental samples. Included are a set of functions to analyze, visualize, and organize measured concentration data as it relates to user-selected chemical-biological interaction benchmark data such as water quality criteria. The intent of these analyses is to develop a better understanding of the potential biological relevance of environmental chemistry data. Results can be used to prioritize which chemicals at which sites may be of greatest concern. These methods are meant to be used as a screening technique to predict potential for biological influence from chemicals that ultimately need to be validated with direct biological assays. A description of the analysis can be found in Blackwell (2017) <doi:10.1021/acs.est.7b01613>.