p3-find-features

Find Features By Filtering on a Field

p3-find-features.pl [options] keyName

This script finds features based on the value in one of several feature-identifying fields (other than patric_id). It provides standard filtering parameters to otherwise limit the output. (So, for example, you can require that the features output belong only to a specific genome using --eq genome_id.)

Parameters

The positional parameter is the name of the field used to match the incoming keys. The following fields are permitted.

refseq_locus_tag

The locus tag from REFSEQ

protein_id

The REFSEQ protein ID.

gene

The common gene name (e.g. rpoA).

gene_id

The standard gene number.

aa_sequence_md5

The protein sequence MD5 code.

The standard input can be overridden using the options in Input Options.

Additional command-line options are those given in Data Options and Column Options plus the following.

keyNames

Rather than processing the input, list the valid key names.