Welcome to the tutorial. Here, we will install the scripts and use them in a simple annotation.
To run these scripts, you may need to install these elements:
formatdb -p F -i contig.seq
perl tb.plSince no project has been provided, the project prompt will appear. Enter '1' to create a new project. Provide the paths to the required files. Remember to use '/' as folder separator, even if you are using Win32:
perl bsniffer.pl checkThis will load the 'check' project that we had created. Since no file name has been provided, the script will open the first file in alphabetical order, and will keep opening all of the files in the project until stopped. The following time BlastSniffer is called, it will keep opening files where it was stopped. After performing calculations, a combination is displayed. Inside 'check/results' there is a new folder with the name of the open protein. This folder contains a text file with 'tbn' extension which contains the TBLASTN result in a simplified format. See the BlastSniffer documentation to learn how to choose a hit combination.
perl genetuner.pl checkor
perl genetuner_W32.pl checkSince no file name was provided, GeneTuner starts opening files in the same order as BlastSniffer. See the GeneTuner documentation to learn how to define exon boundaries.