According to the manual primersearch from EMBOSS allows the use of -Iquery as a qualifier.
I essentially only want to search a part of my sequence file with my primer list based on sequence name. A couple of weeks ago I did this and was able to only look for hits from a certain sequence. Now I started playing around with my pipeline again and although I don't need the function as I can analyze afterwards, it would cut down on the time spent running primersearch on my data set.
Anybody have an idea how I would go about doing this, since I'm running primersearch over and over again it would help with the number of calculations done it I could cut down on the number of sequences being analyzed.
Thanks in Advance, Dave