# gp_randseq

## GP

## 2000

## 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_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>