The below perl executes and does classify each of the 3 lines in file.txt. Lines 2 and 3 are correct as they fit the criteria for Rule 2.
The problem is that line one should be classified VUS as it does not meet the criteria for Rule 1, so Rule 3 is used.
However, currently Rule 2 is changing the classification to Likely Benign, if I comment that Rule out I get the expected result. I am not sure why that rule is even executed on that line as the first criteria is $FuncIDPrefGene !~ "exonic" --- if field is not exonic, but in line one that field is.
I have included comments in the code, but each rule is designed to follow a specific set of criteria. I have tried changing the order but the result is the same. Thank you
Hi
I have a file from which i need to remove the first 4 and the last 2 lines.. i know how to do it with sed but i need to do it in a perl script.. can you please help me how to do that.
Thanks (10 Replies)
Can anyone tell me what could be the solution to following :
I have one .txt file which contains some seed information. This seed may appear multiple time in the file so what I want do is if this seed appears again in the file then that line should be removed.
here is the contents of .txt... (5 Replies)
I've hunted and hunted but nothing seems to apply to what I need. Any help will be much appreciated!
My input file looks like (Unix):
marker,allele1,allele2
RS1002244,1,1
RS1002244,1,3
RS1002244,3,3
RS1003719,2,2
RS1003719,2,4
RS1003719,4,4
Most markers are listed 3 times but a few... (2 Replies)
i try to do this for a long time
input is command ls -l
and output is:
Number of files : xx
Number of file type – awk : 5 total size: 2345 bytes // file ex type .awk
Number of file type – dat : 10 total size: 233 bytes // file ex type .dat
...
Number of unknown file type... (1 Reply)
Hi,
I want to match the time in the file and retrieve those contents of the file.
I am taking only first two parameters of localtime(time) function minutes and seconds so partial match i am performing.
For Example
$start = "14:23";
$end = "14:30";
I am matching file contents... (3 Replies)
Dear All,
I need to classify my data into sets or ranges based on values in the second column of a file as - low medium and high.
INPUT:
file1.dat
1.tmp 1.03
2.tmp 0.38
3.tmp 3.23
4.tmp 1.34
I would like to classify all the numerical values into a range based on the followng... (3 Replies)
Hi,
I have 500 MB of file.
I want to retain first line and last line of the file.
I am unaware of deleting lines from a file in PERL.
How can i do it in PERL?
Regards
VANITHA (3 Replies)
Good Day All,
I need to make a script that will do the following :
1- read a .csv file line by line, check the 3 field of each file print the whole line if
this field matches the condition (note : FS = ",")
2-from the basic file, the script should genrate 3 new files based on the step #1... (6 Replies)