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bioconductor.org "QualityControl" keyword

View the packages on the bioconductor.org package registry that are tagged with the "QualityControl" keyword.

Top 8.7% on bioconductor.org
regionReport 1.44.0
Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
6 versions - Latest release: 2 months ago - 1 dependent package - 36.7 thousand downloads total - 10 stars on GitHub - 1 maintainer
Top 1.9% on bioconductor.org
MSnbase 2.36.0
Base Functions and Classes for Mass Spectrometry and Proteomics
8 versions - Latest release: 3 months ago - 30 dependent packages - 586 thousand downloads total - 123 stars on GitHub - 1 maintainer
bandle 1.14.0
An R package for the Bayesian analysis of differential subcellular localisation experiments
6 versions - Latest release: 2 months ago - 8.17 thousand downloads total - 4 stars on GitHub - 1 maintainer
SPIAT 1.12.0
Spatial Image Analysis of Tissues
10 versions - Latest release: 3 months ago - 10.8 thousand downloads total - 24 stars on GitHub - 1 maintainer
shinyMethyl 1.46.0
Interactive visualization for Illumina methylation arrays
6 versions - Latest release: 2 months ago - 35 thousand downloads total - 6 stars on GitHub - 1 maintainer
SICtools 1.40.0
Find SNV/Indel differences between two bam files with near relationship
6 versions - Latest release: 2 months ago - 17.6 thousand downloads total - 1 maintainer
MSstatsPTM 2.12.0
Statistical Characterization of Post-translational Modifications
12 versions - Latest release: 2 months ago - 2 dependent packages - 18.8 thousand downloads total - 6 stars on GitHub - 1 maintainer
traseR 1.40.0
GWAS trait-associated SNP enrichment analyses in genomic intervals
6 versions - Latest release: 2 months ago - 18.9 thousand downloads total
AMARETTO 1.26.0
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis an...
6 versions - Latest release: 3 months ago - 16.9 thousand downloads total - 1 maintainer
FilterFFPE 1.20.0
FFPE Artificial Chimeric Read Filter for NGS data
6 versions - Latest release: 2 months ago - 9.54 thousand downloads total - 1 maintainer
mdp 1.30.0
Molecular Degree of Perturbation calculates scores for transcriptome data samples based on their ...
6 versions - Latest release: 2 months ago - 15.1 thousand downloads total - 1 maintainer
Top 1.3% on bioconductor.org
ShortRead 1.68.0
FASTQ input and manipulation
7 versions - Latest release: 3 months ago - 36 dependent packages - 1.97 million downloads total - 1 maintainer
sangeranalyseR 1.20.0
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R
6 versions - Latest release: 2 months ago - 21.7 thousand downloads total - 1 maintainer
SNAGEE 1.50.0
Signal-to-Noise applied to Gene Expression Experiments
6 versions - Latest release: 2 months ago - 25.5 thousand downloads total - 1 maintainer
CODEX 1.42.0
A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing
6 versions - Latest release: 2 months ago - 1 dependent package - 32.5 thousand downloads total - 1 maintainer
CytoMDS 1.6.1
Low Dimensions projection of cytometry samples
5 versions - Latest release: about 1 month ago - 5.04 thousand downloads total - 1 stars on GitHub - 1 maintainer
mobileRNA 1.6.1
mobileRNA: Investigate the RNA mobilome & population-scale changes
9 versions - Latest release: 5 days ago - 4.93 thousand downloads total - 1 maintainer
ffpe 1.54.0
Quality assessment and control for FFPE microarray expression data
6 versions - Latest release: 2 months ago - 33.2 thousand downloads total - 1 maintainer
Top 5.4% on bioconductor.org
QDNAseq 1.46.0
Quantitative DNA Sequencing for Chromosomal Aberrations
6 versions - Latest release: 3 months ago - 4 dependent packages - 77.4 thousand downloads total - 52 stars on GitHub - 1 maintainer
scPipe 2.10.0
Pipeline for single cell multi-omic data pre-processing
6 versions - Latest release: 3 months ago - 24.9 thousand downloads total - 69 stars on GitHub - 1 maintainer
MatrixQCvis 1.18.0
Shiny-based interactive data-quality exploration for omics data
6 versions - Latest release: 2 months ago - 10.8 thousand downloads total - 1 maintainer
Top 5.2% on bioconductor.org
pRoloc 1.50.0
A unifying bioinformatics framework for spatial proteomics
8 versions - Latest release: 3 months ago - 3 dependent packages - 79.7 thousand downloads total - 16 stars on GitHub - 1 maintainer
DAPAR 1.42.0
Tools for the Differential Analysis of Proteins Abundance with R
11 versions - Latest release: 2 months ago - 1 dependent package - 29.9 thousand downloads total - 1 maintainer
Top 2.8% on bioconductor.org
DECIPHER 3.6.0
Tools for curating, analyzing, and manipulating biological sequences
6 versions - Latest release: 2 months ago - 7 dependent packages - 352 thousand downloads total - 1 maintainer
Doscheda 1.32.0
A DownStream Chemo-Proteomics Analysis Pipeline
6 versions - Latest release: 2 months ago - 15.4 thousand downloads total - 1 maintainer
ggspavis 1.16.0
Visualization functions for spatial transcriptomics data
10 versions - Latest release: 2 months ago - 1 dependent package - 16.8 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 4.7% on bioconductor.org
interactiveDisplayBase 1.48.0
Base package for enabling powerful shiny web displays of Bioconductor objects
6 versions - Latest release: 2 months ago - 3 dependent packages - 1.02 million downloads total - 1 maintainer
Basic4Cseq 1.46.0
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
6 versions - Latest release: 2 months ago - 29.9 thousand downloads total - 1 maintainer
IONiseR 2.34.0
Quality Assessment Tools for Oxford Nanopore MinION data
6 versions - Latest release: 2 months ago - 26.7 thousand downloads total - 1 maintainer
MSstatsBioNet 1.2.0
Network Analysis for MS-based Proteomics Experiments
2 versions - Latest release: 3 months ago - 2.74 thousand downloads total - 2 stars on GitHub - 1 maintainer
cummeRbund 2.51.0
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
6 versions - Latest release: 2 months ago - 594 thousand downloads total - 1 maintainer
Top 9.3% on bioconductor.org
HELP 1.68.0
Tools for HELP data analysis
6 versions - Latest release: 2 months ago - 37.1 thousand downloads total - 1 maintainer
Top 9.1% on bioconductor.org
Harshlight 1.82.0
A "corrective make-up" program for microarray chips
6 versions - Latest release: 3 months ago - 38.6 thousand downloads total - 1 maintainer
clstutils 1.58.0
Tools for performing taxonomic assignment
6 versions - Latest release: 2 months ago - 30.2 thousand downloads total - 1 maintainer
chevreulShiny 1.2.0
Tools for managing SingleCellExperiment objects as projects
3 versions - Latest release: about 1 month ago - 2.33 thousand downloads total - 0 stars on GitHub - 1 maintainer
esATAC 1.32.0
An Easy-to-use Systematic pipeline for ATACseq data analysis
6 versions - Latest release: 2 months ago - 26.8 thousand downloads total - 23 stars on GitHub - 1 maintainer
tidySummarizedExperiment 1.20.1
Brings SummarizedExperiment to the Tidyverse
7 versions - Latest release: 2 months ago - 5 dependent packages - 23.4 thousand downloads total - 26 stars on GitHub - 1 maintainer
dreamlet 1.8.0
Scalable differential expression analysis of single cell transcriptomics datasets with complex st...
7 versions - Latest release: 3 months ago - 8.98 thousand downloads total - 20 stars on GitHub - 1 maintainer
Top 5.6% on bioconductor.org
HTqPCR 1.64.0
Automated analysis of high-throughput qPCR data
6 versions - Latest release: 2 months ago - 2 dependent packages - 60.7 thousand downloads total - 1 maintainer
Top 6.7% on bioconductor.org
segmentSeq 2.44.0
Methods for identifying small RNA loci from high-throughput sequencing data
6 versions - Latest release: 3 months ago - 44.6 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 9.3% on bioconductor.org
dyebias 1.70.0
The GASSCO method for correcting for slide-dependent gene-specific dye bias
6 versions - Latest release: 3 months ago - 37.1 thousand downloads total - 1 maintainer
Top 4.7% on bioconductor.org
RnBeads 2.28.0
RnBeads
6 versions - Latest release: 2 months ago - 1 dependent package - 79.7 thousand downloads total - 1 maintainer
RITAN 1.34.0
Rapid Integration of Term Annotation and Network resources
6 versions - Latest release: 2 months ago - 15.5 thousand downloads total - 1 maintainer
SpotSweeper 1.6.0
Spatially-aware quality control for spatial transcriptomics
8 versions - Latest release: 3 months ago - 6.21 thousand downloads total - 12 stars on GitHub - 1 maintainer
scrapper 1.4.0
Bindings to C++ Libraries for Single-Cell Analysis
6 versions - Latest release: 2 months ago - 16.9 thousand downloads total - 1 maintainer
miQC 1.18.0
Flexible, probabilistic metrics for quality control of scRNA-seq data
6 versions - Latest release: 3 months ago - 13.4 thousand downloads total - 16 stars on GitHub - 1 maintainer
MSstatsLOBD 1.18.0
Assay characterization: estimation of limit of blanc(LoB) and limit of detection(LOD)
6 versions - Latest release: 2 months ago - 7.75 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 5.4% on bioconductor.org
limmaGUI 1.86.0
GUI for limma Package With Two Color Microarrays
6 versions - Latest release: 2 months ago - 57.4 thousand downloads total - 1 maintainer
countsimQC 1.28.0
Compare Characteristic Features of Count Data Sets
6 versions - Latest release: 2 months ago - 1 dependent package - 22.4 thousand downloads total - 29 stars on GitHub - 1 maintainer
Top 5.5% on bioconductor.org
dupRadar 1.40.0
Assessment of duplication rates in RNA-Seq datasets
6 versions - Latest release: 3 months ago - 59.8 thousand downloads total - 2 stars on GitHub - 2 maintainers
GloScope 2.0.1
Population-level Representation on scRNA-Seq data
6 versions - Latest release: 2 months ago - 5.98 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 4.3% on bioconductor.org
arrayQualityMetrics 3.66.0
Quality metrics report for microarray data sets
7 versions - Latest release: 5 days ago - 214 thousand downloads total - 1 stars on GitHub - 1 maintainer
CytoPipeline 1.10.0
Automation and visualization of flow cytometry data analysis pipelines
6 versions - Latest release: 2 months ago - 2 dependent packages - 7.34 thousand downloads total - 6 stars on GitHub - 1 maintainer
RcwlPipelines 1.26.0
Bioinformatics pipelines based on Rcwl
7 versions - Latest release: 2 months ago - 1 dependent package - 13.6 thousand downloads total - 1 maintainer
Top 4.1% on bioconductor.org
GWASTools 1.56.0
Tools for Genome Wide Association Studies
6 versions - Latest release: 3 months ago - 4 dependent packages - 138 thousand downloads total - 18 stars on GitHub - 1 maintainer
Top 5.2% on bioconductor.org
GENESIS 2.40.0
GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzi...
6 versions - Latest release: 3 months ago - 1 dependent package - 83 thousand downloads total - 40 stars on GitHub - 1 maintainer
RiboProfiling 1.39.1
Ribosome Profiling Data Analysis: from BAM to Data Representation and Interpretation
6 versions - Latest release: 2 months ago - 25.3 thousand downloads total - 1 maintainer
Top 6.6% on bioconductor.org
methylumi 2.56.0
Handle Illumina methylation data
6 versions - Latest release: 3 months ago - 7 dependent packages - 387 thousand downloads total - 8 stars on GitHub - 1 maintainer
singleCellTK 2.20.1
Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data
11 versions - Latest release: 5 days ago - 1 dependent package - 38.4 thousand downloads total - 1 maintainer
ppcseq 1.18.0
Probabilistic Outlier Identification for RNA Sequencing Generalized Linear Models
6 versions - Latest release: 3 months ago - 8.5 thousand downloads total - 8 stars on GitHub - 1 maintainer
ChIPexoQual 1.34.0
ChIPexoQual
6 versions - Latest release: 3 months ago - 19.1 thousand downloads total - 1 stars on GitHub - 1 maintainer
sights 1.36.0
Statistics and dIagnostic Graphs for HTS
6 versions - Latest release: 3 months ago - 15.9 thousand downloads total - 0 stars on GitHub - 1 maintainer
assorthead 1.4.0
Assorted Header-Only C++ Libraries
4 versions - Latest release: 2 months ago - 308 thousand downloads total - 1 stars on GitHub - 1 maintainer
MAGAR 1.18.0
MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation an...
6 versions - Latest release: 2 months ago - 10.1 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 7.9% on bioconductor.org
mdqc 1.72.0
Mahalanobis Distance Quality Control for microarrays
6 versions - Latest release: 2 months ago - 1 dependent package - 43.1 thousand downloads total - 1 maintainer
ENmix 1.46.1
Quality control and analysis tools for Illumina DNA methylation BeadChip
11 versions - Latest release: 5 days ago - 47.9 thousand downloads total - 1 maintainer
MotifPeeker 1.2.0
Benchmarking Epigenomic Profiling Methods Using Motif Enrichment
2 versions - Latest release: 2 months ago - 2.74 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 3.2% on bioconductor.org
beadarray 2.60.0
Quality assessment and low-level analysis for Illumina BeadArray data
7 versions - Latest release: 5 days ago - 5 dependent packages - 233 thousand downloads total - 1 maintainer
iasva 1.28.0
Iteratively Adjusted Surrogate Variable Analysis
6 versions - Latest release: 2 months ago - 13.8 thousand downloads total - 2 maintainers
snm 1.58.0
Supervised Normalization of Microarrays
6 versions - Latest release: 2 months ago - 1 dependent package - 45.6 thousand downloads total - 1 maintainer
ibh 1.58.0
Interaction Based Homogeneity for Evaluating Gene Lists
6 versions - Latest release: 3 months ago - 28.9 thousand downloads total - 1 maintainer
TargetDecoy 1.16.0
Diagnostic Plots to Evaluate the Target Decoy Approach
6 versions - Latest release: 3 months ago - 8.32 thousand downloads total - 1 stars on GitHub - 1 maintainer
RadioGx 2.14.0
Analysis of Large-Scale Radio-Genomic Data
6 versions - Latest release: 2 months ago - 12 thousand downloads total - 1 maintainer
scmeth 1.30.0
Functions to conduct quality control analysis in methylation data
6 versions - Latest release: 2 months ago - 1 dependent package - 14.8 thousand downloads total - 0 stars on GitHub - 1 maintainer
MSstatsQC 2.28.0
Longitudinal system suitability monitoring and quality control for proteomic experiments
6 versions - Latest release: 2 months ago - 1 dependent package - 16.2 thousand downloads total - 1 maintainer
SCOPE 1.22.0
A normalization and copy number estimation method for single-cell DNA sequencing
6 versions - Latest release: 2 months ago - 11.3 thousand downloads total - 1 maintainer
Top 9.4% on bioconductor.org
R453Plus1Toolbox 1.60.0
A package for importing and analyzing data from Roche's Genome Sequencer System
7 versions - Latest release: 5 days ago - 34.3 thousand downloads total - 1 maintainer
qckitfastq 1.26.0
FASTQ Quality Control
6 versions - Latest release: 2 months ago - 11.1 thousand downloads total - 1 maintainer
doppelgangR 1.38.0
Identify likely duplicate samples from genomic or meta-data
7 versions - Latest release: 3 months ago - 21.1 thousand downloads total - 5 stars on GitHub - 1 maintainer
ramwas 1.34.0
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms
6 versions - Latest release: 2 months ago - 20.5 thousand downloads total - 1 maintainer
unifiedWMWqPCR 1.46.0
Unified Wilcoxon-Mann Whitney Test for testing differential expression in qPCR data
6 versions - Latest release: 2 months ago - 21.2 thousand downloads total - 1 maintainer
affyPLM 1.86.0
Methods for fitting probe-level models
6 versions - Latest release: 3 months ago - 9 dependent packages - 631 thousand downloads total - 0 stars on GitHub - 1 maintainer
flowCut 1.20.0
Automated Removal of Outlier Events and Flagging of Files Based on Time Versus Fluorescence Analysis
6 versions - Latest release: 2 months ago - 14.1 thousand downloads total - 1 maintainer
Scale4C 1.32.0
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
6 versions - Latest release: 2 months ago - 14.5 thousand downloads total - 1 maintainer
Top 5.6% on bioconductor.org
sesame 1.28.1
SEnsible Step-wise Analysis of DNA MEthylation BeadChips
9 versions - Latest release: about 2 months ago - 4 dependent packages - 88.4 thousand downloads total - 80 stars on GitHub - 1 maintainer
massiR 1.46.0
massiR: MicroArray Sample Sex Identifier
6 versions - Latest release: 2 months ago - 24.1 thousand downloads total - 1 maintainer
systemPipeShiny 1.20.0
systemPipeShiny: An Interactive Framework for Workflow Management and Visualization
6 versions - Latest release: 3 months ago - 10.5 thousand downloads total - 1 maintainer
Top 6.2% on bioconductor.org
arrayQuality 1.88.0
Assessing array quality on spotted arrays
6 versions - Latest release: 3 months ago - 75.5 thousand downloads total - 1 maintainer
skewr 1.42.0
Visualize Intensities Produced by Illumina's Human Methylation 450k BeadChip
6 versions - Latest release: 2 months ago - 18.6 thousand downloads total - 1 maintainer
RiboDiPA 1.18.0
Differential pattern analysis for Ribo-seq data
6 versions - Latest release: 2 months ago - 9.31 thousand downloads total - 1 maintainer
CellBarcode 1.16.0
Cellular DNA Barcode Analysis toolkit
7 versions - Latest release: 3 months ago - 18.8 thousand downloads total - 2 stars on GitHub - 1 maintainer
DegNorm 1.20.0
DegNorm: degradation normalization for RNA-seq data
6 versions - Latest release: 2 months ago - 10.7 thousand downloads total - 1 stars on GitHub - 1 maintainer
crumblr 1.2.0
Count ratio uncertainty modeling base linear regression
2 versions - Latest release: 3 months ago - 2.52 thousand downloads total - 6 stars on GitHub - 1 maintainer
Top 4.7% on bioconductor.org
MSstats 4.18.1
Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics Experi...
12 versions - Latest release: 5 days ago - 8 dependent packages - 94.3 thousand downloads total - 1 maintainer
bigmelon 1.36.0
Illumina methylation array analysis for large experiments
6 versions - Latest release: 2 months ago - 21.8 thousand downloads total - 1 maintainer
Top 5.4% on bioconductor.org
pcaExplorer 3.4.0
Interactive Visualization of RNA-seq Data Using a Principal Components Approach
6 versions - Latest release: 3 months ago - 2 dependent packages - 66.4 thousand downloads total - 56 stars on GitHub - 1 maintainer
UMI4Cats 1.20.0
UMI4Cats: Processing, analysis and visualization of UMI-4C chromatin contact data
8 versions - Latest release: 3 months ago - 9.94 thousand downloads total - 5 stars on GitHub - 1 maintainer
Top 5.9% on bioconductor.org
systemPipeR 2.16.3
systemPipeR: Workflow Environment for Data Analysis and Report Generation
8 versions - Latest release: 5 days ago - 3 dependent packages - 276 thousand downloads total - 54 stars on GitHub - 1 maintainer
BioQC 1.38.0
Detect tissue heterogeneity in expression profiles with gene sets
6 versions - Latest release: 3 months ago - 27.8 thousand downloads total - 5 stars on GitHub - 1 maintainer
yarn 1.36.0
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
6 versions - Latest release: 2 months ago - 1 dependent package - 23.8 thousand downloads total - 1 maintainer
Related Keywords
Software 255 Preprocessing 108 Sequencing 100 GeneExpression 77 Visualization 76 ImmunoOncology 75 Normalization 74 DataImport 72 RNASeq 63 Microarray 61 DifferentialExpression 56 BatchEffect 40 MassSpectrometry 38 Clustering 38 Transcriptomics 36 SingleCell 35 Proteomics 35 Coverage 35 TwoChannel 32 Alignment 29 MultipleComparison 28 DNAMethylation 26 Genetics 25 Transcription 24 OneChannel 21 Regression 20 Epigenetics 19 GeneSetEnrichment 19 ChIPSeq 19 GUI 18 ReportWriting 18 Infrastructure 17 DataRepresentation 16 Metabolomics 16 bioconductor 15 FunctionalGenomics 15 DimensionReduction 14 Classification 13 BiomedicalInformatics 13 DifferentialMethylation 13 ShinyApps 13 r 12 MethylationArray 12 PrincipalComponent 11 TimeCourse 11 Bayesian 11 SystemsBiology 10 ExperimentalDesign 10 CellBiology 10 WorkflowStep 9 CopyNumberVariation 9 ATACSeq 8 mRNAMicroarray 8 Network 8 FlowCytometry 8 GeneRegulation 8 SequenceMatching 8 CpGIsland 7 MethylSeq 7 GenomeAnnotation 7 Spatial 7 SNP 7 DifferentialSplicing 7 AlternativeSplicing 7 Annotation 6 GO 6 CellBasedAssays 6 GraphAndNetwork 6 GeneticVariability 6 Pathways 6 StatisticalMethod 6 ProprietaryPlatforms 6 bioconductor-package 6 proteomics 5 AssayDomain 5 FeatureExtraction 5 tidyverse 5 DNASeq 5 ExonArray 4 shiny 4 qPCR 4 WholeGenome 4 Microbiome 4 RiboSeq 4 MicrotitrePlateAssay 4 MultiChannel 4 bioinformatics 4 CRISPR 4 mass-spectrometry 4 Lipidomics 4 Cheminformatics 4 deseq2 3 edger 3 transcriptomics 3 genomics 3 r-package 3 GenomeAssembly 3 rstats 3 rnaseq 3 SangerSeq 3