I've just installed Bioperl. I am completely new to such kinds of software. I have few questions:
- How to inform Bioperl that my fasta file is in a specific location and to use it for restriction digestions or to use it for Blast or other functions. (I am using Bioperl for windows 7).
- How to make a script file in Linuix. I mean in windows, I can open notepad and save the file as ex.pl). Now, in Linux, how to save the file with such extension. Or it is not necessary and Linux identify it.
- Last and very important to me, can anyone kindly inform me how to extract specific sequences from a fasta file saved on my hard disk and from a certain start position to a specific end position and save it as text or Excel file using Bioperl. I have a list (file in Excel) of predicted genes from a bacterial genome.