occu(unmarked)
occu()所属R语言包：unmarked
Fit the MacKenzie et al. (2002) Occupancy Model
适合Mackenzie等人。 （2002）出租模型
译者：生物统计家园网 机器人LoveR
描述----------Description----------
This function fits the single season occupancy model of MacKenzie et al (2002).
此功能适合的单季占用的麦肯齐等人（2002）的模型。
用法----------Usage----------
参数----------Arguments----------
参数：formula
Double right-hand side formula describing covariates of detection and occupancy in that order.
双人右手边式描述的检测和占用协变量的顺序。
参数：data
An unmarkedFrameOccu object
unmarkedFrameOccu对象
参数：knownOcc
Vector of sites that are known to be occupied. These should be supplied as row numbers of the y matrix, eg, c(3,8) if sites 3 and 8 were known to be occupied a priori.
被占用，被称为向量的网站。这些行号的Y矩阵，例如，C（3,8），应提供被称为是占据了如果网站3和8。
参数：starts
Vector of parameter starting values.
向量参数的初始值。
参数：method
Optimization method used by optim.
优化所使用的方法optim。
参数：se
Logical specifying whether or not to compute standard errors.
逻辑指定是否计算标准误差。
参数：engine
Either "C" or "R" to use fast C++ code or native R code during the optimization.
无论是“C”或“R”使用快速的C + +代码或本机在优化过程中的R代码。
参数：...
Additional arguments to optim, such as lower and upper bounds
其他参数OPTIM，如上限和下限
Details
详细信息----------Details----------
See unmarkedFrame and unmarkedFrameOccu for a description of how to supply data to the data argument.
见unmarkedFrame和unmarkedFrameOccu如何提供数据data参数的描述。
occu fits the standard occupancy model based on zero-inflated binomial models (MacKenzie et al. 2006, Royle and Dorazio 2008). The occupancy state process (z_i) of site i is modeled as
occu符合标准的占用模型的基础上的零膨胀二项式模型（Mackenzie等人，2006年，罗伊尔和Dorazio 2008）。占用状态的过程（z_i）的网站i建模为
The observation process is modeled as
观察过程建模
Covariates of psi_i and p_ij are modeled using the logit link according to the formula argument. The formula is a double right-hand sided formula like ~ detform ~ occform where detform is a formula for the detection process and occform is a formula for the partially observed occupancy state. See formula for details on constructing model formulae
协变量的psi_i和p_ij根据formula参数logit的关联建模。其计算公式为一个双右手侧式~ detform ~ occformdetform是在检测过程中的公式和occform是一个公式的部分可观测的占用状态。为上构建模型公式的详细信息，请参阅公式
值----------Value----------
unmarkedFitOccu object describing the model fit.
描述模型拟合unmarkedFitOccu对象。
（作者）----------Author(s)----------
Ian Fiske
参考文献----------References----------
J. Andrew Royle, and C. A. Langtimm. 2002. Estimating Site Occupancy Rates When Detection Probabilities Are Less Than One. Ecology 83: 2248-2255.
Amsterdam: Academic Press.
in Ecology. Academic Press.
参见----------See Also----------
unmarked, unmarkedFrameOccu,
unmarked，unmarkedFrameOccu，
实例----------Examples----------
data(frogs)
pferUMF <- unmarkedFrameOccu(pfer.bin)
plot(pferUMF, panels=4)
# add some fake covariates for illustration[添加一些假的协变量说明]
siteCovs(pferUMF) <- data.frame(sitevar1 = rnorm(numSites(pferUMF)))
# observation covariates are in site-major, observation-minor order[观察协变量是在主要站点，观察未成年人为了]
obsCovs(pferUMF) <- data.frame(obsvar1 = rnorm(numSites(pferUMF) * obsNum(pferUMF)))
(fm <- occu(~ obsvar1 ~ 1, pferUMF))
confint(fm, type='det', method = 'normal')
confint(fm, type='det', method = 'profile')
# estimate detection effect at obsvars=0.5[估计检测效果obsvars = 0.5]
(lc <- linearComb(fm['det'],c(1,0.5)))
# transform this to probability (0 to 1) scale and get confidence limits[把这种概率（0~1）的规模，并得到置信限]
(btlc <- backTransform(lc))
confint(btlc, level = 0.9)
# Empirical Bayes estimates of proportion of sites occupied with 95% CI[经验贝叶斯估计网站的比例占据95％CI]
# No uncertainty because p is so high![的不确定性，因为p是如此之高！]
re <- ranef(fm)
c("PAO"=sum(bup(re, stat="mode")), colSums(confint(re)))
转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。
注：
注1：为了方便大家学习，本文档为生物统计家园网机器人LoveR翻译而成，仅供个人R语言学习参考使用，生物统计家园保留版权。
注2：由于是机器人自动翻译，难免有不准确之处，使用时仔细对照中、英文内容进行反复理解，可以帮助R语言的学习。
注3：如遇到不准确之处，请在本贴的后面进行回帖，我们会逐渐进行修订。
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发表于 2012-10-1 13:25:22
