Question: why length of some genes are zero?
0
gravatar for F
3.2 years ago by
F3.1k
Iran
F3.1k wrote:

hi,

i used biophysconnector package to extract average length of genes from my bed file (ribo-seq) and two txt file come from ribo-seq and rna-seq but 

this is the result is like this:

 plot(avg_adj)
> p <- 1:length(avg_adj)
> lm(log(avg_adj)~p)

Call:
lm(formula = log(avg_adj) ~ p)

Coefficients:
(Intercept)            p  
  0.2907094    0.0004894  

> p <- c(1:33)
> lm(log(avg_adj)[1:33]~p)

Call:
lm(formula = log(avg_adj)[1:33] ~ p)

Coefficients:
(Intercept)            p  
    0.41381     -0.01231  

> model <- lm(log(avg_adj)[1:33]~p)
> abline(model)
> length(avg_adj)
[1] 148
> View(genes)
> View(geneslength)
> geneslength[geneslength=0]
numeric(0)
> geneslength[geneslength==0]
  [1] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
 [68] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
[135] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
[202] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
[269] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
[336] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
[403] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
R bed biophysconnector • 785 views
ADD COMMENTlink modified 3.2 years ago by Devon Ryan86k • written 3.2 years ago by F3.1k
3
gravatar for Devon Ryan
3.2 years ago by
Devon Ryan86k
Freiburg, Germany
Devon Ryan86k wrote:

There are no 0 length genes. That's either a problem with the package/database or your script.

ADD COMMENTlink written 3.2 years ago by Devon Ryan86k

thanks Devon

you always all right

ADD REPLYlink written 3.2 years ago by F3.1k
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