Software to read whole genomes?
Dr. Duncan Clark
duncan at genesys.demon.co.uk
Fri Sep 26 03:30:56 EST 1997
In article <60dqc3$725$1 at dismay.ucs.indiana.edu>, Don Gilbert
<gilbertd at bio.indiana.edu> writes
>SeqPup is a free biosequence editor that has the ability
>to work with large, genome-sized sequences. This ability
>is still limited in various respects, but it will open
>and display a test sequence of 1.8 megabases (H.influenzae).
>It comes in Mac, MSWindows and XWindows flavors; try
>the C++ (older) version rather than the Java version, which
>probably isn't ready for genomes yet. Find it at
>If you try it on a 3MB genome, let me know if it works.
The 32bit version loads up a 2.2Mb genome but tends to fall over a lot
under Win95 with exception errors that need on occasion a reboot. I'm
just about to try the 16 bit version, maybe that is happier.
The online help extracts the RTF file then crashes after 3 pages however
I can open the orginal help file in Word.
I open the sequence and it comes up in a window with a single line nice
coloured base sequence, not word wrapped. Using the bottom toolbar I can
move anywhere in that sequence (until the location numbers get
overwritten and unreadable as one scrolls). However I can't find how to
just highlight part of the sequence for copying. It sounds so simple but
how do you do it? I just want to remove say 10kb to find the orfs.
The problem with being on the cutting edge is that you occasionally get
sliced from time to time....
More information about the Bio-soft