ecogrep

ecogrep [options] filename

ecoPCR is an electronic PCR software developed by LECA and Helix-Project. It helps to estimate Barcode primers quality.

This program belongs to the exoPCR package.

-1 : [FIRST] : compare the given pattern with direct strand oligonucleotide

-2

: [SECOND] : compare the given pattern with reverse strand oligonucleotide

-d

: [D]atabase containing taxonomic information

-e

: [E]rrors : max error allowed in pattern match (option-1, -2 and -p) (0 by default)

-p

: [P]attern : oligonucleotide pattern

-h

: [H]elp : print <this> help

-i

: [I]gnore subtree under given taxonomic id

-r

: [R]estrict search to subtree under given taxomic id

-v

: in[V]ert the sense of matching, to select non-matching lines.

argument:

ecoPCR output file name

http://www.grenoble.prabi.fr/trac/ecoPCR/