In response to the second question about the placement of D<=t, there are two
instances of it: once after the comment "starts inside node" (After the line
with the comment "start & end in first node") and one after "starts outside
node." Did that answer the question?
I don't know if this helps, but I originally had it in terms of just "m"
time steps (its below; the changed parts are highlighted), but I wanted to
convert it into actual time "w." That's when the problem started.
Probability <- function(N, f, m, b, y, t) {
#N is the number of lymph nodes (500-600)
#f is the fraction of Dendritic cells (in the correct node) that have
the
antigen
#m is the number of time steps
#b is the starting position (somewhere in the node or somewhere in the
gap
between nodes. It is a number between 1 and (x+t))
#y is the number of time steps it takes to traverse the gap
#t is the number of time steps it takes to traverse a node.
A <- 1/N
B <- 1-A
C <- 1-f
D <- (((m+b-1)%%(y+t))+1)
if (b<=t) {########starts inside node
if (m<=(t-b)){return(B + A*(C^m))} # start & end in
first node
if (D<=t) { # we finish in a node
a <- (B + A*(C^(t-b))) #first node
b <- ((B + A*(C^t))^(floor((m+b)/(y+t))-1)) #
intermediate nodes (if
any)
c <- (B + A*(C^D)) # last node
return(a*b*c)
} else {return(Probability(N, f, *(m-1)*, b, y,
t))} ## finish in a gap
} else {###### starts outside node
if (m<=(y+t-b)) {return(1)} #also end in the gap
if (D<=t) { #end in a node
b <- ((B + A*(C^t))^(floor((m/(y+t)))))
c <- (B + (A*(C^D)))
return(b*c)
} else {return(Probability(N, f, *(m-1)*, b, y,
t))} #outside node
}
}
I changed (m-1) to (m*q-q) in order to get the same effect, but perhaps it
had some adverse effect?
I still don't know how to fix this...
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