Reference-free method for conducting EWAS while deconvoluting DNA methylation arising as mixtures of cell types. The older method (Houseman et al., 2014,<doi:10.1093/bioinformatics/btu029>) is similar to surrogate variable analysis (SVA and ISVA), except that it makes additional use of a biological mixture assumption. The newer method (Houseman et al., 2016, <doi:10.1186/s12859-016-1140-4>) is similar to non-negative matrix factorization, with additional constraints and additional utilities.
| Version: | 2.1 |
| Depends: | R (≥ 3.2.2), isva, quadprog |
| Published: | 2017-02-25 |
| Author: | E. Andres Houseman, Sc.D. |
| Maintainer: | E. Andres Houseman <eahouseman at gmail.com> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: | no |
| CRAN checks: | RefFreeEWAS results |
| Reference manual: | RefFreeEWAS.pdf |
| Package source: | RefFreeEWAS_2.1.tar.gz |
| Windows binaries: | r-devel: RefFreeEWAS_2.1.zip, r-release: RefFreeEWAS_2.1.zip, r-oldrel: RefFreeEWAS_2.1.zip |
| OS X El Capitan binaries: | r-release: not available |
| OS X Mavericks binaries: | r-oldrel: RefFreeEWAS_2.1.tgz |
| Old sources: | RefFreeEWAS archive |
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