Biocview "BatchEffect"

A dimensionality reduction tool using gene detection pattern to mitigate noisy expression profile of scRNA-seq
A dimensionality reduction tool using gene detection pattern to mitigate noisy expression profile of scRNA-seq
A dimensionality reduction tool using gene detection pattern to mitigate noisy expression profile of scRNA-seq
Adjust for positional and batch effects using ComBat
Adjust for positional and batch effects using ComBat
alpine
alpine
An Interactive Consensus Clustering Framework for Multi-platform Data Analysis
An Interactive Consensus Clustering Framework for Multi-platform Data Analysis
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
A Robust and Scalable Software Package for Reproducible Analysis of High-Throughput genotype-phenotype association
A Robust and Scalable Software Package for Reproducible Analysis of High-Throughput genotype-phenotype association
ascend - Analysis of Single Cell Expression, Normalisation, and Differential expression
Assess Differential Gene Expression Experiments with ERCC Controls
Assess Differential Gene Expression Experiments with ERCC Controls
Assess Differential Gene Expression Experiments with ERCC Controls
Assess Differential Gene Expression Experiments with ERCC Controls
Association analysis of CNVs and imputed SNPs incorporating uncertainty
Batch Effects Correction with Unknown Subtypes
Batch Effects Correction with Unknown Subtypes
Batch Effects Quality Control Software
Controlling bias and inflation in association studies using the empirical null distribution
Correction of batch effects in DNA methylation data
Correction of batch effects in DNA methylation data
Correspondence Analysis for Single Cell Data
Cross Platform Meta-Analysis of Microarray Data
Cross Platform Meta-Analysis of Microarray Data
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 (USC version)
DegNorm: degradation normalization for RNA-seq data
Detecting hidden batch factors through data adaptive adjustment for biological effects
Detecting hidden batch factors through data adaptive adjustment for biological effects
Detecting hidden batch factors through data adaptive adjustment for biological effects
Detecting hidden batch factors through data adaptive adjustment for biological effects
Empirical Analysis of Digital Gene Expression Data in R
Evaluate Cellspecific Mixing
Evaluate Cellspecific Mixing
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms
Fast, Sensitive, and Accurate Integration of Single Cell Data
Fishpond: differential transcript and gene expression with inferential replicates
Fishpond: differential transcript and gene expression with inferential replicates
GC Aware Peak Caller
GC Aware Peak Caller
Generally applicable transcriptome-wide analysis of translational efficiency using anota2seq
Generally applicable transcriptome-wide analysis of translational efficiency using anota2seq
GUI for limma Package with Affymetrix Microarrays
GUI for limma Package With Two Color Microarrays
Identify, Annotate and Visualize Alternative Splicing and Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data.
Identify, Annotate and Visualize Alternative Splicing and Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data.
ImagingAMARETTO: tools for interpreting multi-omics networks for relevance to clinical outcomes and radiographic and histopathology imaging-derived biomarkers
Integrative Analysis Pipeline for Pooled CRISPR Functional Genetic Screens
Integrative Analysis Pipeline for Pooled CRISPR Functional Genetic Screens
Iteratively Adjusted Surrogate Variable Analysis
Iteratively Adjusted Surrogate Variable Analysis
Iteratively Adjusted Surrogate Variable Analysis
k-nearest neighbour batch effect test
KnowSeq R/Bioc package: Beyond the traditional Transcriptomic pipeline
KnowSeq R/Bioc package: Beyond the traditional Transcriptomic pipeline
Linear model and normality based normalization and transformation method (Linnorm)
Linear Models for Microarray Data
Meta-analysis for the metagenomic read counts data from different cohorts
Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies
Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies
Methods for Single-Cell RNA-Seq Data Analysis
Methods for Single-Cell RNA-Seq Data Analysis
Microarray Analysis of Differential Expression
Multiomic Batch effect Correction
Multivariate Information Criteria to identify important predictors in high dimensional multivariate regression
Multivariate Information Criteria to identify important predictors in high dimensional multivariate regression
Peak Matrix Processing and signal batch correction for metabolomics datasets
Peak Matrix Processing and signal batch correction for metabolomics datasets
Principal Variance Component Analysis (PVCA)
QA/QC of a gVCF or VCF file
QA/QC of a gVCF or VCF file
Quantify and interpret divers of variation in multilevel gene expression experiments
Quantify and interpret divers of variation in multilevel gene expression experiments
Random Rotation Methods for High Dimensional Data with Batch Structure
Random Rotation Methods for High Dimensional Data with Batch Structure
Rcpp Integration Surrogate Variable Analysis
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
RnBeads
scMerge: Merging multiple batches of scRNA-seq data
scMerge: Merging multiple batches of scRNA-seq data
Single-Cell Batch Correction Methods
Single-Cell Batch Correction Methods
Smooth quantile normalization
Smooth quantile normalization
Statistical Analysis of Molecular Profiles
Statistical Analysis of Molecular Profiles
Statistics and dIagnostic Graphs for HTS
Statistics and dIagnostic Graphs for HTS
Surrogate Variable Analysis
Surrogate Variable Analysis
SVAPLSseq-An R package to estimate the hidden factors of unwanted variability and adjust for them to enable a more powerful and accurate differential expression analysis based on RNAseq data
The removal of batch effects from datasets using a PCA and constrained optimisation based technique
The removal of batch effects from datasets using a PCA and constrained optimisation based technique
Tools for Diagnostics and Corrections of Batch Effects in Proteomics
Tools for Diagnostics and Corrections of Batch Effects in Proteomics
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
Well Plate Maker
What the Package Does (One Line, Title Case)
What the Package Does (One Line, Title Case)