SWAN pipeline

SWAN specifications


Unique identifier OMICS_02303
Alternative name Subset-quantile Within Array Normalization
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Stability Stable
Requirements methods, BiocGenerics, Biobase, lattice, GenomicRanges, SummarizedExperiment, Biostrings, bumphunter
Maintained Yes


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  • person_outline Alicia Oshlack <>

Publication for Subset-quantile Within Array Normalization

SWAN IN pipeline

PMCID: 4312439
PMID: 25623364
DOI: 10.1186/s12967-015-0384-5

[…] probe were also computed and used in order to discard those probes with low quality. a probe was discarded if at least 2 of its detection p-values were over 0.01., the normalization step used the swan method to correct the differences that appeared due to the two different probe designs present in the infinium humanmethylation450 [15]. a set containing both m (methylated) and u (unmethylated) […]

SWAN institution(s)
Murdoch Childrens Research Institute, Parkville, Australia
SWAN funding source(s)
This work was supported by the Victorian Government's Operational Infrastructure Support Program to MCRI.

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