nanostringr: Performs Quality Control, Data Normalization, and Batch Effect
Correction for 'NanoString nCounter' Data
Provides quality control (QC), normalization, and
batch effect correction operations for 'NanoString nCounter' data,
Talhouk et al. (2016) <doi:10.1371/journal.pone.0153844>. Various
metrics are used to determine which samples passed or failed QC. Gene
expression should first be normalized to housekeeping genes, before a
reference-based approach is used to adjust for batch effects. Raw
NanoString data can be imported in the form of Reporter Code Count
(RCC) files.
| Version: |
0.3.0 |
| Depends: |
R (≥ 3.5.0) |
| Imports: |
assertthat, ccaPP, dplyr, epiR, magrittr, purrr, rlang |
| Suggests: |
covr, knitr, rmarkdown, testthat |
| Published: |
2022-05-24 |
| Author: |
Derek Chiu [aut, cre],
Aline Talhouk [aut],
Samuel Leung [aut] |
| Maintainer: |
Derek Chiu <dchiu at bccrc.ca> |
| BugReports: |
https://github.com/TalhoukLab/nanostringr/issues |
| License: |
MIT + file LICENSE |
| URL: |
https://github.com/TalhoukLab/nanostringr/,
https://talhouklab.github.io/nanostringr/ |
| NeedsCompilation: |
no |
| Citation: |
nanostringr citation info |
| Materials: |
NEWS |
| CRAN checks: |
nanostringr results |
Documentation:
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