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3D Fungus Generator
Focusing on Alternaria


Computer vision group @ UA
In collaboration with B. Pryor

For questions or problems email
Kate Spriggs at taralove @ u.arizona.edu

terminology

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Recursion level This is the number of steps to use to grow the fungus; Start with a small number, then increase.
See example here
Example value: 18 (18-45 recommended)
Random Seed Change this to any number less than 65000 to get a different fungus from the same type;
Example: 120 or 18723, etc
Probability distribution of primary conidiophore spacing
Gamma distributed spacing in terms of number of cells:
Alpha: Beta: Number of cells:
How many hyphae cells to create on vegetative hyphae before creating a primary conidiophore. Number of cells is gamma distributed. Gamma parameters examples.
Example values: Alpha: 1.0, Beta: 0.5, Cells: 7
Probability distribution of generating first spore on primary conidiophore
Alpha: Beta: Number of cells:
First spore on primary conidiophore How many hyphae cells (number is gamma distributed) to create before creating first spore on primary conidiophore.
Example values: Alpha: 1.0, Beta: 0.5, Length: 2
Hyphae cell length
Gamma Distributed cell length:
Alpha: Beta: Hyphae Length:
The length of each hyphae cell is drawn from a gamma distribution. The mean of the distribution is alpha/beta. Read more here.
Example values: Alpha: 3.0, Beta: 0.5, Length: 10
Probability of a sub-conidium conidiophore elongation
Spore and develop this elongation:Just spore and do not develop:
sub-conidium development
Develop a sub-conidium elongation
no sub-conidium development
Do not develop, just spore
Probability value between 0 and 1.
Example values: Develop: 0.3, Just Spore: 0.7
Sub-conidium hypha cell length
Alpha: Beta: Cell length:
Gamma parameters examples.
Example values: Alpha: 1.0, Beta: 0.5, Cell length: 5
Probability of "after-sub-conidium" development
Continue to elongate:Skip a turn (wait):
Spore: 
 
Elongate after a sub-conidium development
Continue to elongate
Skip a turn after a sub-conidium development
Skip a turn (wait)
Spore after a sub-conidium development
Spore
Example values: Elongate: 0.1, Skip Turn: 0.1, Spore: 0.8
Probability of "after-spore" conidiophore developments
Just spore again:Skip a turn (wait):
Lateral intra-conidium conidiophore development:Apical conidium terminus conidiophore development:
Create another spore
Create another spore
Skip a turn after the spore
Skip a turn (wait)
Create a later-intra development
Lateral-intra development
Create an apical conidium terminus
Apical conidium terminus
Example values: Spore: 0.6, Wait: 0.0, Lateral: 0.1, Apical: 0.3
Probability of "after-apical" developments
Continue to elongate:Skip a turn (wait):
Spore:Sub-conidium:
Elongate after an apical development
Continue to elongate
Skip a turn after an apical development
Skip a turn (wait)
Spore after an apical development
Spore
Example values: Elongate: 0.1, Skip Turn: 0.1, Spore: 0.8
Apical conidium length
Alpha: Beta: Cell length:
Gamma parameters examples.
Example values: Alpha: 1.0, Beta: 0.5, Length: 10.0
Probability of "after-lateral intra" developments
Continue to elongate:Skip a turn (wait):
Spore:Sub-conidium:
Elongate after a lateral-intra development
Continue to elongate
Skip a turn after a lateral-intra development
Skip a turn (wait)
Spore after a lateral-intra development
Spore
Example values: Elongate: 0.1, Skip Turn: 0.1, Spore: 0.8
Lateral intra-conidium length
Alpha: Beta: Cell length:
Gamma parameters examples.
Example values: Alpha: 1.0, Beta: 0.5, Length: 10.0



ADVANCED OPTIONS

Images are coming up soon...
Spore (ellipsoid) shape. Shape parameters automatically change slightly with the age of the spore.
Ellipse_a: Ellipse_b: Ellipse_c:
Example values: Ellipse_a: 10, Ellipse_b: 4, Ellipse_c: 4
Age of spore at which it can produce an apical The age of a spore is counted from the time the spore comes into being, and increases with every recursion step. Example: 4.
Age of spore at which it can produce a lateral The age of a spore is counted from the time the spore comes into being, and increases with every recursion step. Example: 4.
Lateral angle, about x axis
Gaussian mean: Guassian variance:
Angle away from orientation vector.
Lateral angle, about y axis
Uniform min: Uniform max:
Angle around orientation vector.
Sub-conidium angle of hypha cell, about x axis
Uniform min: Uniform max:
Hypha angle away from orientation vector
Sub-conidium angle of hypha cell, about y axis
Uniform min: Uniform max:
Hypha angle around the orientation vector
Sub-conidium angle of spore, about x axis
Uniform min: Uniform max:
Spore angle away from orientation vector
Sub-conidium angle of spore, about y axis Context-sensitive rule: value is automatically computed. This value is the opposite angle of the value obtained from "Sub-conidium angle of hypha cell, about y axis"
Develop hyphal branch off primary conidiophore or not
Develop branch: Do not develop branch:
Used for the arborescens species. Probability value between 0 and 1.
Example values: Branch: 0.3 Do notbranch: 0.7
Length of secondary branch Gamma distributed length:
Alpha: Beta: Branch length:
Gamma parameters examples.
Example values: Alpha: 1.0, Beta: 0.5, Length: 10.0
Angle for secondary branch, about x axis
Gaussian mean: Guassian variance:
Angle away from orientation vector.
Angle for secondary branch, about y axis
Uniform min: Uniform max:
Angle around orientation vector.
Max number of spore for branch level 1
Gaussian mean: Guassian variance:
Limits the length of the conidia chains.
Example values: Mean: 15 Variance: 3
Max number of spore for branch level 2
Gaussian mean: Guassian variance:
Limits the length of the conidia chains.
Example values: Mean: 8 Variance: 3
Max number of spore for branch level 3
Gaussian mean: Guassian variance:
Limits the length of the conidia chains.
Example values: Mean: 3 Variance: 1
Max number of spore for branch level 4
Gaussian mean: Guassian variance:
Limits the length of the conidia chains.
Example values: Mean: 0 Variance: 0
Max number of spore for branch level 5
Gaussian mean: Guassian variance:
Limits the length of the conidia chains.
Example values: Mean: 0 Variance: 0



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