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gp_pattern

Langue: en

Version: 111686 (mandriva - 01/05/08)

Section: 1 (Commandes utilisateur)

NAME

gp_pattern - computate frequencies of nucleotide patterns

SYNOPSIS

[-H] [-q] [-v] [-d] [-h] [inputfile] [outputfile]

OPTIONS

-l value
set pattern length
-H
Output in HTML mode
-v
Prints the version information.
-q
Do not display error messages
-d
Prints lots of debugging information.
-h
Shows usage information.
inputfile
file to proces; if not given, will use standard input
outputfile
file to write the data to; if not given, will use standard output

DESCRIPTION

gp_dimer records frequencies of patterns. The pattern length is set with the -l option. Beware: the number of possible patterns grows exponentially, so setting pattern length greater then 6 can be dangerous. You must use this program only with DNA/RNA sequences.

SEE ALSO

Genpak(1) gp_acc(1) gp_adjust(1) gp_cdndev(1) gp_cusage(1) gp_digest(1) gp_dimer(1) gp_findorf(1) gp_gc(1) gp_getseq(1) gp_map(1) gp_matrix(1) gp_mkmtx(1) gp_primer(1) gp_qs(1) gp_randseq(1) gp_seq2prot(1) gp_slen(1) gp_tm(1) gp_trimer(1)

DIAGNOSTICS

All Genpak programs complain in situations you would also complain, like when they cannot find a sequence you gave them or the sequence is not valid.

The Genpak programs do not write over existing files. I have found this feature very useful :-)

BUGS

I'm sure there are plenty left, so please mail me if you find them. I tried to clean up every bug I could find.

AUTHOR

January Weiner III <january@bioinformatics.org>

L'Être Humain : "L'être humain a tellement l'habitude de parler et de
regarder, temps en temps les gens qui sont aveugles sont plus awares que
les gens qui voillent, parce qu'ils sont obligés de sentir les
sensations, les gens qu'ils aiment pas, qu'ils aiment bien, et les
objets qui sont, et on est aware."
-+- Jean-Claude VanDamme -+-