trimTaxa

A simple script to delete the first row and then delete the first and fourth column of a four column tab delimited file and write to another file.

Functions for assigning taxonomy to NCBI accession numbers and taxon IDs based on NCBI's accession2taxid and taxdump files. This package allows the user to download NCBI data dumps and create a local database for fast and local taxonomic assignment.

Scott SherrillMix

taxonomizr

Functions to Work with NCBI Accessions and Taxonomy

Scott Sherrill-Mix

trimTaxa function

<dl><dt>inFile</dt>
<dd>a single string giving the 4 column tab separated file to read from</dd>
<dt>outFile</dt>
<dd>a single string giving the file path to write to</dd>
<dt>desiredCols</dt>
<dd>the integer IDs for columns to pull out from file</dd></dl>

Arguments

Trim columns from taxa file — trimTaxa

<dl>

<dt>inFile</dt>
<dd>a single string giving the 4 column tab separated file to read from</dd>


<dt>outFile</dt>
<dd>a single string giving the file path to write to</dd>


<dt>desiredCols</dt>
<dd>the integer IDs for columns to pull out from file</dd>

</dl>

trimTaxa: Trim columns from taxa file

Description

Usage

Arguments