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bio.infer (version 1.3-6)
Predict Environmental Conditions from Biological Observations
Description
Imports benthic count data, reformats this data, and computes environmental inferences from this data.
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Install
install.packages('bio.infer')
Monthly Downloads
325
Version
1.3-6
License
GPL (>= 2)
Maintainer
Lester L Yuan
Last Published
September 2nd, 2020
Functions in bio.infer (1.3-6)
Search all functions
correct.taxanames
Correct unrecognized taxon names
envdata.OR
Environmental data from western OR
bcnt.OR
Benthic count data for western Oregon
bio.infer-package
Scripts for computing biological inferences
coef.west.wt
Weighted regression coefficients for western U.S.
bcnt.otu.OR
Benthic count data with OTU
coef.east.sed
Regression coefficients for eastern U.S. sediment
bcnt.emapw
Benthic count data for the western United States
flist.data
List available data
get.otu
Defines operational taxonomic units (OTUs)
bcnt.tax.OR
Benthic count with taxonomic hierarchy
load.itis
Load ITIS taxon table
load.revised.otu
Loads a user-revised OTU table
flist.match
Selects data files matching search string
incorp.correct
Incorporate taxon name revisions
formtomat
Analyze formula string
in.ITIS
Check to see if taxon name is in ITIS
get.dupe.sel
Get duplicate selection
parse.taxon.name
Parse taxon name
itis.ttable
ITIS taxonomic hierarchy table
get.taxonomic
Merge benthic count data with the ITIS taxonomy table
infergui
Graphical User Interface for biological inferences
envdata.emapw
Environmental data from the western United States
make.fulltab1
Make full taxonomic table
get.taxon.names
Get taxon names from benthic count file
get.valid.names
Get taxon names from benthic count file
tklist.modal
Modal select list dialog using TclTk
remove.dupes
Remove unselected duplicates from taxon table
output.tax.table
Output final taxonomic table
make.species
Generate species names
modalDialog
Modal dialog box using TclTK
trait.habit
Habit traits for benthic invertebrates
sel.coeffile
Select coefficient file
trait.stat
Compute trait metrics
resolve.mult
Resolve cases in which two taxa are found in ITIS
view.te
View taxon-environment relationships
makess
Make a site-OTU matrix
locate.dupes
Locate duplicated taxon names
taxon.env
Estimate taxon-environment relationships
load.revised.species
Loads a user-revised list of species names
ss.OR
site-OTU matrix for western Oregon
trait.feeding
Feeding traits for benthic invertebrates
mlsolve
Maximum likelihood inferences