This page contains descriptions of some software that has been loaded onto the SAF AXP machine and links any on line manuals for same.

RTFtoHTML converts RTF format to HTML format Users Guide, Overview, Sample Styles,

Xmgr Very flexible X11 based plotting program Xmgr Users Guide,

GLE Very flexible plotting program that preview on Regis, Tektronix, or X11 devices, outputs to Postscript or HPGL. GLE Users Guide,

AmuletCross platform GUI Amulet documentation

CGM Draw ("CD")Portable package for drawing CGM graphics filesCD documentation

CLONEITInteractive program for designing cloning experiments CLONEIT documentation

Usage:


% tofasta -infile=vector_in_gcg_format.seq -out=vector.nfa
% tofasta -infile=insert_in_gcg_format.seq -out=insert.nfa
% cloneit -VEvector.fasta -INinsert.fasta


This will put you in a menu system which *will* roll off the top of the screen (46 options), so be sure you use an emulator which will let you scroll back up.

There are two enzyme files you might want to use:


/usr/local/doc/cloneit/Rebasesmall
/usr/local/doc/cloneit/allenz


The first is a short list of common Restriction enzymes, the latter is all enzymes in the most recent NEB database.

The only other environmental variable you might want to change is the symbol CLONEPRINT, which directs where your printed output goes. The default is that it goes to the same place as the PRINT command.