Apologies for the long post and if my question is silly. I could really use some help here.
I am trying to do a Single season two-species analysis to study the co-occurrence patterns of two species. I have camera trap presence/absence data from 5 macro areas and within each macro area are approximately 25 camera stations. These cameras were deployed at different dates across 5 years as they were not initially deployed for co-occurrence analysis specifically. Therefore, some of the cameras were active for almost a year whereas some for 5-6 weeks. So my sampling occasions were 15 day periods. My hypothesis is that the co-occurrence patterns may vary based on the macro site, the habitat and the year.
In order to avoid overparameterizing my model, I decided to do individual analyses for every macro-site. I had 25 sites, 17 surveys occasions, 2 site-specific covariates (habitat 1 and habitat 2) for my first model for Macro area 1. My design matrix was as follows, (assuming independence based on the biology of the species)
- Code: Select all
a1 a2 a3 a4 a5 a6
psiA 1 habitat1 habitat2 0 0 0
psiB 0 0 0 1 habitat1 habitat2
phi 0 0 0 1 habitat1 habitat2
- Code: Select all
-,b1,b2,b3,b4,b5,b6,b7,b8,b9,b10,b11,b12,b13,b14,b15,b16,b17,b18,b19,b20,b21,b22,b23,b24,b25,b26,b27,b28,b29,b30,b31,b32,b33,b34,b35,b36,b37,b38,b39,b40,b41,b42,b43,b44,b45,b46,b47,b48,b49,b50,b51,b52,b53,b54,b55,b56,b57,b58,b59,b60,b61,b62,b63,b64,b65,b66,b67,b68,b69,b70,b71,b72,b73,b74,b75,b76,b77,b78,b79,b80,b81,b82,b83,b84,b85,
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delta[16] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
delta[17] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1
I intended to add year as another covariate in the next model. However, I understand that it will add more parameters to the model and I am worried that it will affect my analysis. I've probably got the design matrix wrong.
My question is would it be a better way to go if I take all the cameras from all the macro sites and have macro site as a covariate in addition to the habitat and year covariates? It would be great if someone could help me with setting up the design matrix.
Thanks in advance,
Jasni