Affymetrix microarrays of different technology versions are very often used in transcriptomics analysis. Quality control and normalization approaches do exist, especially as packages in Bioconductor/R. However: - Procedures are often different between teams. - They are not always easy to access as they run through command lines. - It is often no…
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README.md
affyAnalysisQC.R
affyAnalysisQC_web.R
functions_imagesQC.R
functions_processingQC.R
preProcessingQC_web.R
processFilesQC_web.R
run_affyAnalysisQC.R
setParametersQC_web.R

README.md

affyQC_Module

Affymetrix microarrays of different technology versions are very often used in transcriptomics analysis. Quality control and normalization approaches do exist, especially as packages in Bioconductor/R. However: - Procedures are often different between teams. - They are not always easy to access as they run through command lines. - It is often not clear what the meaning of the specific settings and results are - They are not always usable for the newer technology types of arrays. To tackle this, we proposed an automated well-documented and user-friendly pipeline for Affymetrix microarray quality control and normalization.