read.fasta

A file with fasta-formatted sequences. Can optionally be compressed with gzip, bzip2, xz, or lzma.

file

Character vector of IDs to retrieve. The default, <code>NULL</code>, will retrieve everything.

Parse a fasta file into a named character vector.

A toolkit for working with Biological Observation Matrix ('BIOM') files.
Features include reading/writing all 'BIOM' formats, rarefaction, alpha
diversity, beta diversity (including 'UniFrac'), summarizing counts by
taxonomic level, and sample subsetting. Standalone functions for
reading, writing, and subsetting phylogenetic trees are also provided.
All CPU intensive operations are encoded in C with multi-thread support.

Daniel P. Smith

rbiom

Read/Write, Transform, and Summarize 'BIOM' Data

read.fasta function

<dl><dt>file</dt>
<dd>A file with fasta-formatted sequences. Can optionally be compressed with gzip, bzip2, xz, or lzma.</dd>
<dt>ids</dt>
<dd>Character vector of IDs to retrieve. The default, <code>NULL</code>, will retrieve everything.</dd></dl>

Arguments

Parse a fasta file into a named character vector. — read.fasta

<dl>

<dt>file</dt>
<dd>A file with fasta-formatted sequences. Can optionally be compressed with gzip, bzip2, xz, or lzma.</dd>


<dt>ids</dt>
<dd>Character vector of IDs to retrieve. The default, <code>NULL</code>, will retrieve everything.</dd>

</dl>

read.fasta: Parse a fasta file into a named character vector.

Description

Usage

Value

Arguments