Simulate stochastic growth from a sequence of matrices

graph_title (text/plain)

Description:

Is the main title to be display in the stochastic projection graph. Click in add value and then write the text in the right space. Please do not use a title longer than the suggest it.

Example value:

Projection of stochastic growth for Gentiana using equal and unequal probabilities

intervals (text/plain)

Description:

This value is the number of time steps or projection intervals to predict future population size or in other words the time to predict future population size. Click in add value and write the number in the right space.

Example value:

25

iterations (text/plain)

Description:

It is the number of iterations or the number of realizations of population growth to simulate. Click in add value and write the number in the right space.

Example value:

1000

nmax (text/plain)

Description:

It is a maximum number of individuals beyond which population projections cannot exceed.

No density dependence:

If the user wants to use no density dependence, this is established by: First, click in add value, then in the left window a List is added with a "Some input data goes here" element in the right window. Delete that text. After deletion the "List" have no elements in the right window. When running the workflow, Rshell script will assign NULL to the input. (this is when you are running the wf in Taverna workbench).

Density dependence:

If the user wants to introduce a density dependence: Click in add value and write the number in the right space.

e.g. 500

Example value:

[]

probabilities (text/plain)

Description:

It is a vector of probability weights used by sample for selecting the projection matrices. In the following example, we use 6 matrices of 6 consecutive years, so if the user selects probabilities weights, the user must fill in 6 probabilities in total that sum up 1.

No probability weights:

If the user wants to use no probability weights, this is established by: First, click in add value, then in the left window a List is added with a "Some input data goes here" element in the right window. Delete that text. After, deletion the "List" have no elements. When running the workflow, Rshell script will assign NULL to the input. (this is when you are running the wf in Taverna workbench)

Probability weights:

The respective probabilities must be filled one by one, they must sum up 1. First, press add value (see arrow in Fig.), fill a probability number and press enter; then press add value and fill once again the next probability, repeat the action until you have filled the probabilities for all matrices. The order of the probabilities must follow the order of the years input. Each year represent a matrix.

e.g. 0.1, 0.1, 0.1, 0.1, 0.2, 0.4 (all the probabilities must sum up 1)

Example value:

[0.1, 0.1, 0.1, 0.1, 0.2, 0.4]

stages (text/plain)

Description:

The names of the stages or categories of the input matrix. In the following example, the matrix has 5 stages or categories. The respective name stages must be filled one by one. First press add value (see arrow in Fig), fill a stage name (not longer than 8 characters) and press enter; then press add value and fill once again the next stage name, repeat the action until you have fill all the stages names.

In the following example, the matrix has 5 stages or categories:

The stages of this matrix are called:
1) Seedlings S
2) Juveniles J
3) Vegetative V
4) Reproductive individuals G
5) Dormant plants D

Example value:

[S, J, V, G, D]

sumweight (text/plain)

Description:

A vector of ones and zeroes used to omit stage classes when checking density. threshold.

The respective sumweights must be filled one by one, the values must be 1 if the stage is included or 0 if is absent. First, press add value (see arrow in Fig.), fill a sumweights number and press enter; then press add value and fill once again the next sumweight, repeat the action until you have filled the sumweights for all stages. The order of the sumweights must follow the order of the stage input.

e.g. 1, 1, 1, 1, 1 (all the stages are included)

e.g. 1, 1, 1, 0, 1 (stage G is omit)

Example value:

[1, 1, 1, 1, 1]

years (text/plain)

Description:

Years in which the data of the matrices were collected. The years must be added one by one as list. First click in add value, fill the first year and press enter, then press add value and fill once again the next year, repeat the action until you have fill all the years.

The years can be display as follow:
e.g.
• 1987
or
• 1987-1988

Example value:

[1987, 1988, 1989, 1990, 1991, 1992]

equal_selection (text/csv)

Description:

stochastic_projection (image/png)

Description:

unequal_selection (text/csv)

Description: