next up previous
Next: Bibliography Up: Introduction to Sequence Analysis Previous: Patterns, profiles and multiple

Subsections

Conclusion

We have shown you some of the programs available within EMBOSS, and have introduced you to the way you can run these programs from the command line. We have not explored all the options available with these programs, and certainly have not completely covered all the applications currently available. We hope you have enjoyed learning about EMBOSS, and that you now have a better idea of the types of problems it can help you to solve.

We encourage you to visit the EMBOSS web pages at
http://www.uk.embnet.org/Software/EMBOSS/ where you will find information on the various applications EMBOSS has to offer. There is also a manual built in to EMBOSS known as tfm.

Exercise: tfm

We can use this program to see the manual entries for each program in EMBOSS. Let's look at the entry for the program wossname.

unix % tfm wossname

Displays a program's help documentation	manual

			      EMBOSS: wossname
     _________________________________________________________________

			       Program wossname

Function

   Finds programs by keywords in their one-line	documentation

Description

   This	allows a user to search	for keywords or	parts of words in the
   brief documentation (as displayed by	a program when it first	starts).
   The program name and	the brief description is output. If no words to
   search for are specified, then details of all the EMBOSS programs are
   output.

   The program has been	written	on the assumption that most people will
   use it to quickly find the name of a	program	based on that program's
   description,	so the output goes to the screen by default.

   This	program	may find some use in automatically generating lists of
   EMBOSS programs and their groups for	Web pages.

Usage

   Here	are some sample	sessions with wossname.

	Search for programs with 'restrict' in their description
	% wossname restrict

	Display	a listing of programs in their groups
--More--(8%)

The program displays the contents of the manual page by page, and you can move onto the next page by using the space bar. This behaviour may be turned off using the -nomore option.


next up previous
Next: Bibliography Up: Introduction to Sequence Analysis Previous: Patterns, profiles and multiple
Gary Williams
2003-04-29