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gp_randseq

Langue: en

Version: 111689 (mandriva - 01/05/08)

Section: 1 (Commandes utilisateur)

NAME

gp_randseq - generate random DNA sequences from a master sequence

SYNOPSIS

gp_randseq [-l length] [-number] [-q] [-v] [-d] [-h] [inputfile] [outputfile]

OPTIONS

-n value
set the number of random sequences to value
-l value
set the random sequence length to value
-m
instead of cutting out sequences at random positions in the genome, computate the Markov chain probabilities for nucleotides and generate sequences basing on that.
-v
Prints the version information.
-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_randseq cuts out random sequences from a larger sequence. It is useful in genomic comparisons (e.g. what will be the distribution of a certain parameter in my set of sequences as compared to random sequences). The probability distribution of the sequence start should be linear.

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_pattern(1) gp_primer(1) gp_qs(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'abolition de la religion en tant que bonheur illusoire du peuple est
une exigence de son bonheur réel. Exiger que le peuple renonce à ses
illusions sur sa condition, c'est exiger qu'il abandonne une condition
qui a besoin d'illusions. La critique de la religion est donc
virtuellement la critique de la vallée de larmes dont la religion est
l'auréole.
-+- Karl Marx -+-