IUPAC_CODES

IUPAC_DNA

IUPAC_AA

DNA_IUPAC

A translation list mapping IUPAC ambiguous characters code to corresponding nucleotide
amino acid characters.

datasets

Provides methods for high-throughput adaptive immune
receptor repertoire sequencing (AIRR-Seq; Rep-Seq) analysis. In
particular, immunoglobulin (Ig) sequence lineage reconstruction,
lineage topology analysis, diversity profiling, amino acid property
analysis and gene usage.
Citations:
Gupta and Vander Heiden, et al (2017) <doi:10.1093/bioinformatics/btv359>,
Stern, Yaari and Vander Heiden, et al (2014) <doi:10.1126/scitranslmed.3008879>.

Susanna Marquez

alakazam

Immunoglobulin Clonal Lineage and Diversity Analysis

Namita Gupta

Nima Nouri

Ruoyi Jiang

Julian Zhou

Kenneth Hoehn

Daniel Gadala-Maria

Edel Aron

Cole Jensen

Jason Vander Heiden

Steven Kleinstein

IUPAC_CODES function

A list with single character codes as names and values containing character 
 vectors that define the set of standard characters that match to each each 
 ambiguous character.<ul>
<li><code>IUPAC_DNA</code>: DNA ambiguous character translations.</li>
<li><code>IUPAC_AA</code>: Amino acid ambiguous character translations.</li>
<li><code>DNA_IUPAC</code>: Ordered DNA to ambiguous characters</li>
</ul>An object of class <code>list</code> of length 15.
An object of class <code>list</code> of length 25.
An object of class <code>list</code> of length 15.

Format

IUPAC ambiguous characters — IUPAC_CODES

A list with single character codes as names and values containing character 
 vectors that define the set of standard characters that match to each each 
 ambiguous character.<ul>
<li><code>IUPAC_DNA</code>: DNA ambiguous character translations.</li>
<li><code>IUPAC_AA</code>: Amino acid ambiguous character translations.</li>
<li><code>DNA_IUPAC</code>: Ordered DNA to ambiguous characters</li>
</ul>

An object of class <code>list</code> of length 15.
An object of class <code>list</code> of length 25.
An object of class <code>list</code> of length 15.

IUPAC ambiguous characters

IUPAC_CODES: IUPAC ambiguous characters

Description

Usage

Arguments

Format