apmsWAPP provides a complete workflow for the analysis of AP-MS data (replicate single-bait purifications including negative controls) based on spectral counts. It comprises pre-processing, scoring and postprocessing of protein interactions. A final list of interaction candidates is reported: it provides a ranking of the candidates according to their p-values which allow estimating the number of false-positive interactions.
| Version: | 1.0 |
| Depends: | R (≥ 3.0.1) |
| Imports: | genefilter, Biobase, seqinr, multtest, gtools, edgeR, DESeq, aroma.light |
| Published: | 2014-04-22 |
| Author: | Martina Fischer |
| Maintainer: | Martina Fischer <fischerm at rki.de> |
| License: | LGPL-3 |
| NeedsCompilation: | no |
| SystemRequirements: | SAINT_v2.3.4 |
| CRAN checks: | apmsWAPP results |
| Reference manual: | apmsWAPP.pdf |
| Package source: | apmsWAPP_1.0.tar.gz |
| Windows binaries: | r-devel: apmsWAPP_1.0.zip, r-release: apmsWAPP_1.0.zip, r-oldrel: apmsWAPP_1.0.zip |
| macOS binaries: | r-release: apmsWAPP_1.0.tgz, r-oldrel: apmsWAPP_1.0.tgz |
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