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Implementing standard curve models for eDNA applications #292

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Implementing standard curve models for eDNA applications #292

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ericward-noaa
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This is referring to this issue, #146

The major changes are:

  • adding new family for the standard curve models
  • allowing a 2nd dataframe to be passed in (currently via sdmTMBcontrol)
  • adding new parameters for estimating PCR plate specific slopes and intercepts
  • added description / extension to model documentation
  • added vignette
  • added tests

ericward-noaa and others added 14 commits January 5, 2024 16:08
@ericward-noaa
Commit changes to incorporate std curves
dffff7f
@ericward-noaa
remove flag
221dcb3
@ericward-noaa
fix issue with betas being connected to observed data
9a069ce
@ericward-noaa
add delta_gaussian() family
d8fae3e
@ericward-noaa
added new family stdcurve
76b16bb
@ericward-noaa
rename hyperparameters, make sds in log space
966a925
@ericward-noaa
add plates df
fcbce37
@ericward-noaa
Add checks for missing fields
8a020c3
@ericward-noaa
Merge branch 'pbs-assess:main' into main
088ef18
@ericward-noaa
Add more reporting per Owen, and update Vignette with predictions
25f82ff
@ericward-noaa
Merge branch 'main' of https://github.com/ericward-noaa/sdmTMB-stdcurve…
5648d61 
… into main
@ericward-noaa
Merge branch 'pbs-assess:main' into main
ee633d8
@owenrliu
Update sdmTMB.cpp
10f1296 
Changing definition of the Bernoulli part of the standard curves to be relative to the linear copies/ul rather than log copies/ul
@ericward-noaa
Merge pull request #1 from ericward-noaa/owenrliu-patch-1
969f726 
Update sdmTMB.cpp
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2 participants
@ericward-noaa @owenrliu