Re^2: Adding missing values into a hash

Thank you very much for your answer :)

Your answer seems quite interesting but I don't know why but I obtain too many "NA".

With de first part of the script I obtain for example

AA=> NA, NA,1,2,5,NA,NA,NA,NA,NA

instead of

AA=> 1,2,5

Perhaps is related with

my (undef,%hash) = split /[\t;=]/,$line;

because you are spliting 3 times, I don't know.

The final csv is

AA => NA,NA,NA

AB => NA,NA,NA

AC => NA,NA,NA

Perhaps is because the problem with de "NA".

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Re^3: Adding missing values into a hash by poj (Abbot) on Jun 19, 2014 at 15:00 UTC
Do you have other lines in the file apart from those like `##INFO=<ID=AA,` and `1 AA=1;AB=2;AC=3` ? Blank lines for example. poj	[reply] [d/l] [select]
Re^4: Adding missing values into a hash by Biopolete (Initiate) on Jun 20, 2014 at 08:16 UTC
No, I don't have any other lines in the file :( I have the same problem if I use your complete script with: __DATA__ ##INFO=<ID=AA, ##INFO=<ID=AB, ##INFO=<ID=AC, 1 AA=1;AB=2;AC=3 2 AA=2;AB=2 3 AA=5;AB=1;AC=1 I only obtain "NA" values in CVS file	[reply]
Re^5: Adding missing values into a hash by poj (Abbot) on Jun 20, 2014 at 08:48 UTC
Check you have a tab character between between `1 and AA=1, 2 and AA=2, 3 and AA=5`, not spaces poj	[reply] [d/l]