ecofind(1)

searching for taxonomic and rank and taxonomy id for given regular expression patterns

Section 1 ecopcr bookworm source

Description

ECOFIND

NAME

ecofind - searching for taxonomic and rank and taxonomy id for given regular expression patterns

DESCRIPTION

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.

SYNOPSIS

ecofind [options] <patterns>

OPTIONS

-a : [A]ll enable the search on all alternative names and not only
scientific names.
-d : [D]atabase containing the taxonomy.

To match the expected format, the database has to be formatted first by the ecoPCRFormat.py program located in the tools directory. Write the database radical without any extension.

-h : [H]elp - print <this> help
-l : [L]ist all taxonomic rank available for -r option
-P : [P]ath : add a column containing the full path for each displayed
taxon
-p : [P]arents : specifying this option displays all parental tree’s
information for the given taxid.
-r : [R]estrict to given taxonomic rank
-s : [S]ons: specifying this option displays all subtree’s information for
the given taxid.
-P : Display taxonomic [P]ath as supplementary column in output
arguments:

<taxon> name pattern bearing regular expressions