Wow…now I hadn’t done that in a long time. Putting together a couple of days work, it amounts to about 16 hours of coding hard. At first, I had idea about using existing programs and packages…but after a few hours of wasting time, it is apparent to me that you cannot lick other people’s sweat too much.
Anyhow, I have finally finished the job, and now I have programs that can
1) pattern-match and extract sequence fragments from any database
2) extract sequence fragments based on annotations in the database, and
3) given two databases A and B generate a third database , C, such that C= B – (A ∩ B)
Pretty soon, the package will be available for use, at least the pattern and annotation matchers. I don’t know about the third option because it is very computer intensive (50hrs for 20K sequences on 2.66 MHz Pentium). Personally, I plan to run it on the 4 dual-core Xeon cluster in the lab. Let us see how that goes…
More from that the “that’s gross” files, I happen to be bit again , by some unknown bug, in a very wierd place. The apparition that has developed, has swollen, bled and itched all at the same time. Guess what , I am going to show you what it is … HA! Too late to turn back now..
Yep, the Black thing you see is clotted blood/scab.
