Biocview "TwoChannel"

Access the ArrayExpress Microarray Database at EBI and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
Access the ArrayExpress Microarray Database at EBI and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
Adaptive Robust Regression normalization for Illumina methylation data
Adaptive Robust Regression normalization for Illumina methylation data
A fast scatterplot smoother suitable for microarray normalization
A fast scatterplot smoother suitable for microarray normalization
Affymetrix SNP Probe-Summarization using Non-Negative Matrix Factorization
Affymetrix SNP Probe-Summarization using Non-Negative Matrix Factorization
A generic R plugin dispatcher for BASE
All sample mean normalization.
Analysis of Agilent Microarray Data [draft]
Analysis of Illumina microarray data [A DRAFT - TRUE]
Analysis of Parent-Specific DNA Copy Numbers
Analysis of Parent-Specific DNA Copy Numbers
Analyze Illumina Infinium DNA methylation arrays
Analyze Illumina Infinium DNA methylation arrays
Analyze Illumina Infinium DNA methylation arrays
An R Object-oriented Microarray Analysis package
A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling
A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling
Assessing array quality on spotted arrays
Assessing array quality on spotted arrays
Bayesian Robust Inference for Differential Gene Expression
Bayesian Robust Inference for Differential Gene Expression
BeadArray Specific Methods for Illumina Methylation and Expression Microarrays
BeadArray Specific Methods for Illumina Methylation and Expression Microarrays
Calibration model for estimating absolute expression levels from microarray data
Calibration model for estimating absolute expression levels from microarray data
CGH Micro-Array NORmalization
CGH Micro-Array NORmalization
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC
Convert Microarray Data Objects
Convert Microarray Data Objects
Copy-Number Analysis of Large Microarray Data Sets
Copy-Number Analysis of Large Microarray Data Sets
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework
Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip
Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip
Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip
Differential Co-expression Analysis
Efficient algorithms for DNA methylation
Efficient design and analysis of factorial two-colour microarray data
Efficient design and analysis of factorial two-colour microarray data
ELBOW - Evaluating foLd change By the lOgit Way
ELBOW - Evaluating foLd change By the lOgit Way
Ensemble of Gene Set Enrichment Analyses
Ensemble of Gene Set Enrichment Analyses
Exploratory analysis for two-color spotted microarray data
Exploratory analysis for two-color spotted microarray data
Functions to handle cDNA microarray data, including several methods of data analysis
Functions to handle cDNA microarray data, including several methods of data analysis
Functions to perform cancer outlier profile analysis.
Functions to perform cancer outlier profile analysis.
Generally Applicable Gene-set Enrichment for Pathway Analysis
Generally Applicable Gene-set Enrichment for Pathway Analysis
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
Graphical user interface for OLIN
Graphical user interface for OLIN
GUI for limma package with two color microarrays
GUI for limma package with two color microarrays
Handle Illumina methylation data
Handle Illumina methylation data
Handle Illumina methylation data
Illumina 450K methylation array spatial analysis methods
Illumina 450 methylation array normalization and metrics
Illumina 450 methylation array normalization and metrics
Illumina 450 methylation array normalization and metrics
Illumina methylation array analysis for large experiments
Illumina methylation array analysis for large experiments
Illumina methylation array analysis for large experiments
Improved Allele-Specific Copy Number of SNP Microarrays for Downstream Segmentation
Improved Allele-Specific Copy Number of SNP Microarrays for Downstream Segmentation
Interactive visualization for Illumina methylation arrays
Interactive visualization for Illumina methylation arrays
Interactive visualization for Illumina methylation arrays
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Linear Model decomposition for Designed Multivariate Experiments
Linear Model decomposition for Designed Multivariate Experiments
Linear Models for Microarray Data
Linear Models for Microarray Data
Linear Models for Microarray Data
Methylated CpGs Set Enrichment Analysis
Methylation array and sequencing spatial analysis methods
Methylation array and sequencing spatial analysis methods
Methylation array and sequencing spatial analysis methods
Microarray Analysis of Differential Expression
Microarray Analysis tool
Microarray Analysis tool
Microarray Spot Segmentation and Gridding for Blocks of Microarray Spots
Microarray Spot Segmentation and Gridding for Blocks of Microarray Spots
Murine Palate miRNA Expression Analysis
Murine Palate miRNA Expression Analysis
Normalization and reporting of Illumina SNP bead arrays
Normalization and reporting of Illumina SNP bead arrays
Normal Uniform Differential Gene Expression detection
Normal Uniform Differential Gene Expression detection
Optimized local intensity-dependent normalisation of two-color microarrays
Optimized local intensity-dependent normalisation of two-color microarrays
Pathway Analysis with Down-weighting of Overlapping Genes (PADOG)
Pathway Analysis with Down-weighting of Overlapping Genes (PADOG)
Permutation-Based Confidence for Molecular Classification
Permutation-Based Confidence for Molecular Classification
Preprocessing of Illumina Infinium 450K data
Preprocessing of Illumina Infinium 450K data
Preprocessing tools for oligonucleotide arrays
Preprocessing tools for oligonucleotide arrays
Preprocessing tools for oligonucleotide arrays
Preprocessing tools for oligonucleotide arrays.
Probe level Locally moderated Weighted t-tests.
Probe level Locally moderated Weighted t-tests.
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)
QC Pipeline and Data Analysis Tools for High-Dimensional Illumina mRNA Expression Data
QC Pipeline and Data Analysis Tools for High-Dimensional Illumina mRNA Expression Data
Quality metrics report for microarray data sets
Quality metrics report for microarray data sets
Quality metrics report for microarray data sets
Repetitive Element Methylation Prediction
Repetitive Element Methylation Prediction
Repetitive Element Methylation Prediction
R functions for the normalization of Exiqon miRNA array data
R functions for the normalization of Exiqon miRNA array data
R Investigation of ChIP-chip Oligoarrays
R Investigation of ChIP-chip Oligoarrays
RnBeads
RnBeads
Robust Analysis of MicroArrays
Robust Analysis of MicroArrays
Segmentation, normalisation and processing of aCGH data.
Segmentation, normalisation and processing of aCGH data.
Signal-to-Noise applied to Gene Expression Experiments
Signal-to-Noise applied to Gene Expression Experiments
Single-channel array normalization (SCAN) and Universal exPression Codes (UPC)
Single-channel array normalization (SCAN) and Universal exPression Codes (UPC)
Spatial and intensity based normalization of cDNA microarray data based on robust neural nets
Spatial and intensity based normalization of cDNA microarray data based on robust neural nets
Stepwise normalization functions for cDNA microarrays
Stepwise normalization functions for cDNA microarrays
Supervised Normalization of Microarrays
Supervised Normalization of Microarrays
Supervised Normalization of Microarrays
The GASSCO method for correcting for slide-dependent gene-specific dye bias
The GASSCO method for correcting for slide-dependent gene-specific dye bias
Tools for HELP data analysis
Tools for HELP data analysis
Variance stabilization and calibration for microarray data
Variance stabilization and calibration for microarray data
Visual and interactive quality control of large Illumina DNA Methylation array data sets
Visual and interactive quality control of large Illumina DNA Methylation array data sets
Visualize Intensities Produced by Illumina's Human Methylation 450k BeadChip
Visualize Intensities Produced by Illumina's Human Methylation 450k BeadChip