⚠️There's a newer version (1.3.0) of this package.Take me there.
Alakazam
Alakazam is part of the Immcantation
analysis framework for Adaptive Immune Receptor Repertoire sequencing
(AIRR-seq) and provides a set of tools to investigate lymphocyte
receptor clonal lineages, diversity, gene usage, and other repertoire level
properties, with a focus on high-throughput immunoglobulin (Ig) sequencing.
Alakazam serves five main purposes:
Providing core functionality for other R packages in the Immcantation
framework. This includes common tasks such as file I/O, basic DNA sequence
manipulation, and interacting with V(D)J segment and gene annotations.
Providing an R interface for interacting with the output of the
pRESTO and
Change-O tool suites.
Performing clonal abundance and diversity analysis on lymphocyte
repertoires.
Performing lineage reconstruction on clonal populations of Ig sequences
and analyzing the topology of the resultant lineage trees.
Performing physicochemical property analyses of lymphocyte receptor
sequences.