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MurrayEfford / openCR

Open Population Capture-Recapture
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Question about model types and likelihood components #10

Closed ramiromagno closed 3 months ago

ramiromagno commented 3 months ago

Hi Murray,

I'm trying to get a comprehensive overview of the different model types and their likelihood components. Is there any place in the documentation where we have a table analogous to the one below but supplemented with the indication of which components are taken into account in each model type?

Many thanks in advance!

is_spatial code type
FALSE 1 CJS
FALSE 2 JSSAb
FALSE 3 JSSAl
FALSE 4 JSSAf
FALSE 5 CJSmte
TRUE 6 CJSsecr
TRUE 7 JSSAsecrf
TRUE 8 JSSAsecrD
TRUE 9 JSSAsecrfCL
TRUE 9 PLBsecrf
TRUE 10 JSSAsecrlCL
TRUE 10 PLBsecrl
TRUE 11 JSSAsecrbCL
TRUE 11 PLBsecrb
TRUE 12 JSSAsecrl
TRUE 13 JSSAsecrb
TRUE 14 JSSAsecrB
FALSE 15 JSSAfCL
FALSE 15 PLBf
FALSE 16 JSSAlCL
FALSE 16 PLBl
FALSE 17 JSSAbCL
FALSE 17 PLBb
FALSE 18 JSSAB
FALSE 19 JSSAN
FALSE 20 Pradel
FALSE 21 JSSARET
FALSE 22 JSSAg
FALSE 23 JSSAgCL
FALSE 23 PLBg
TRUE 24 JSSAsecrg
TRUE 25 JSSAsecrgCL
TRUE 25 PLBsecrg
FALSE 26 Pradelg
FALSE 27 JSSAfgCL
FALSE 28 JSSAk
FALSE 29 JSSAkCL
FALSE 29 PLBk
TRUE 30 secrCL
TRUE 31 secrD
MurrayEfford commented 3 months ago

openCR model types are documented in section 5 of the vignette e.g. https://www.otago.ac.nz/density/pdfs/openCR-vignette.pdf (apologies for some formatting problems with the table column headings). The numeric codes are strictly for internal use only. They can be got with the internal function typecode e.g., openCR:::typecode("CJS").

ramiromagno commented 3 months ago

Thank you so much, I will read it carefully.