[R] R functions

[B77S]

Suji,

# Here is your data ("test").

test <- structure(list(Chr = structure(c(1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L), .Label = "chr2", class = "factor"), start = c(9896633L, 
9896639L, 14314039L, 14404467L, 14421718L, 16031710L, 16036178L, 
16048665L, 37491676L, 37702947L), end = c(9896683L, 9896690L, 
14314098L, 14404502L, 14421777L, 16031769L, 16036237L, 16048724L, 
37491735L, 37703009L), sample1 = c(0, 0, 0, 0, -0.43, -0.43, 
-0.43, -0.43, 0, 0), sample2 = c(0, 0, -0.35, -0.35, -0.35, -0.35, 
-0.35, -0.35, 0, 0)), .Names = c("Chr", "start", "end", "sample1", 
"sample2"), class = "data.frame", row.names = c(NA, -10L))

# Here is where you will likely want to start (but there are many ways to
skin a cat).

test2 <- data.frame(c(rle(test[,4])[[2]], rle(test[,5])[[2]]),
c(rle(test[,4])[[1]], rle(test[,5])[[1]]))
names(test2) <- c("Values", "Probes")


> test2
  Values Probes
1   0.00      4
2  -0.43      4
3   0.00      2
4   0.00      2
5  -0.35      6
6   0.00      2


# Obviously this is not exactly what you wanted, only the last 2 columns. 
Obviously, the tricky part remains... but I hope this helps.  


##########################################



B77S wrote:
> 
> If your data is named 'test_file'
> 
> then use dput(test_file) 
> 
> You can copy and paste the results here so people can more easily try and
> help you.
> 
> see
> ?dput
> 
> 
> 
> 
> sujitha wrote:
>> 
>> Hi group,
>> I am trying to right a code to do the following
>> This is how the test file looks like:
>> Chr start end sample1 sample2
>> chr2 9896633 9896683 0 0
>> chr2 9896639 9896690 0 0
>> chr2 14314039 14314098 0 -0.35
>> chr2 14404467 14404502 0 -0.35
>> chr2 14421718 14421777 -0.43 -0.35
>> chr2 16031710 16031769 -0.43 -0.35
>> chr2 16036178 16036237 -0.43 -0.35
>> chr2 16048665 16048724 -0.43 -0.35
>> chr2 37491676 37491735 0 0
>> chr2 37702947 37703009 0 0
>> 
>> Now I want to summarize the values like 
>> Sample Chr Start End Values Probes
>> 1 chr2 9896633 14404502 0 4
>> 1 chr2 14421718 16048724 -0.43 4
>> 1 chr2 37491676 37703001 0 2
>> 2 chr2 9896633 9896690 0 2
>> 2 chr2 14314039 16048724 -0.35 6
>> 2 chr2 37491676 37703009 0 2
>> 
>> Here the start for the first line would be the least value until values
>> are similiar (4) then the end would be highest value. The values is the
>> unique value among the common values.
>> Can I get some ideas or suggestions to perform this because I am new to
>> hard core program in R? 
>> waiting for your suggestions,
>> Thanks,
>> suji
>> 
> 


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