I used ENMeval R package to produce my species distribution model with algorithm "maxent.jar". I hope to calculate TSS for my binary map output from generated from maxSSS. However, I am unsure about how do I get the sensitivity and specificity to calculate my TSS score for my model.
Can I check how do I calculate TSS from what I have on hand from ENMeval output for my model?
Dear Chan,
You need to calculate true positive rate (sensitivity) and true negative rate (specificity) either from the confusion matrix or by using e.g. package ROCR. Then TSS = TPR + TNR -1.
Please refer to the work of Imelda Somodi on the calculation and the prevalence dependence of TSS: Article Prevalence dependence in model goodness measures with specia...
HTH,
Ákos
could you help me to calculate Kappa and TSS value for maxEnt output? Ákos Bede-Fazekas
Dear Aman,
it is better asking a new question in ReserchGate rather than adding it as an answer to someone's question.
Anyway, calculating kappa and TSS work similarly for any SDMs. The only thing you need is the confusion matrix. But calculating the confsion matrix need two main decisions:
1) can background points handled as absence points?
2) what is the binarization threshold you use to convert your continuous probability predictions to binary (true/false) output
Best,
Ákos
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