Need urgent help with PERL scripting

tonystark · February 16, 2012, 9:54am

From the attached file I to need pick all rows that have AVG2 column value larger than 0.050, and write those values in to a separate file. Help me on how I pick the approp value & output them onto a file.

Very Thanks in advance.

jacobs.smith · February 16, 2012, 10:16am

Please provide tab delimited output for the next time. Check this one out.

Your input file was edited this way

| gdshfghfhdfhdfhdfhdfh | wwwwwwwwww | 1 | 0.024 | 0.021 | 0.030 | 0.024 | A ^ -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhds | wwwwwwwwww | 2 | 0.037 | 0.021 | 0.063 | 0.061 | A ^ -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhd | wwwwwwwwww | 2 | 0.032 | 0.020 | 0.041 | 0.092 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhd | wwwwwwwwww | 1 | 0.015 | 0.014 | 0.021 | 0.107 | A v -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfhdfhd | wwwwwwwwwwww | 1 | 0.021 | 0.009 | 0.020 | 0.129 | A ^ -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.011 | 0.010 | 0.020 | 0.140 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.012 | 0.015 | 0.081 | 0.152 | A v -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 2 | 0.074 | 0.048 | 0.185 | 0.226 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.111 | 0.067 | 0.089 | 0.337 | A v -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.087 | 0.049 | 0.114 | 0.424 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.118 | 0.069 | 0.113 | 0.542 | A v -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.117 | 0.062 | 0.109 | 0.659 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.112 | 0.064 | 0.109 | 0.770 | A v -> X ^ |

Your output

| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 2 | 0.074 | 0.048 | 0.185 | 0.226 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.111 | 0.067 | 0.089 | 0.337 | A v -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.087 | 0.049 | 0.114 | 0.424 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.118 | 0.069 | 0.113 | 0.542 | A v -> X ^ |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.117 | 0.062 | 0.109 | 0.659 | A ^ -> X v |
| gdshfghfhdfhdfhdfhdfh gdshfghfhdfhdfh | wwwwwwwwww | 1 | 0.112 | 0.064 | 0.109 | 0.770 | A v -> X ^ |

Code I have used

Thanks to all these forum members, for making me a simple awk programmer. It promotes learning a lot.

tonystark · February 16, 2012, 10:26am

Smith, your awk does a wonderful job ! Thanks!! but can you help me on how to implement this by means of simple PERL commands?

jacobs.smith · February 16, 2012, 10:36am

Tony,

I am just a very brand new coder from a pure biological field. I visit this forum very often to find solutions. And, since your task was very easy I gave a try to it on my basic knowledge with awk.

I have no idea about PERL. Sorry for not being able to help you. :(:(

Thanks

tonystark · February 16, 2012, 10:38am

Thats totally okay Smith. You have no reason to be sorry. BTW u are one good awk 'er !! Keep it up.

Scott · February 16, 2012, 11:03am

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