nanostringr

Performs Quality Control, Data Normalization, and Batch Effect Correction for 'NanoString nCounter' Data

Derek Chiu, Aline Talhouk, Samuel Leung

Last update: 15 August 2023

Copyright license: MIT license, File License

Software version identifier: 0.4.0, 0.1.0, 0.1.1, 0.1.2, 0.1.3, 0.1.4, 0.2.0, 0.3.0, 0.4.1

Description

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.

Cites work

Single-Patient Molecular Testing with NanoString nCounter Data Using a Reference-Based Strategy for Batch Effect Correction

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