Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
bioconductor.org "PrincipalComponent" keyword
autonomics 1.12.0
Unified statistal Modeling of Omics Data4 versions - Latest release: 16 days ago - 3.18 thousand downloads total - 3 stars on GitHub - 1 maintainer
vsclust 1.4.0
Feature-based variance-sensitive quantitative clustering3 versions - Latest release: 6 months ago - 1.7 thousand downloads total - 1 maintainer
Top 9.3% on bioconductor.org
3 versions - Latest release: 22 days ago - 28 dependent packages - 702 thousand downloads total - 6 stars on GitHub - 1 maintainer
BiocSingular 1.20.0
Singular Value Decomposition for Bioconductor Packages3 versions - Latest release: 22 days ago - 28 dependent packages - 702 thousand downloads total - 6 stars on GitHub - 1 maintainer
OMICsPCA 1.20.0
An R package for quantitative integration and analysis of multiple omics assays from heterogeneou...3 versions - Latest release: 6 months ago - 7.29 thousand downloads total - 1 maintainer
tenXplore 1.24.0
ontological exploration of scRNA-seq of 1.3 million mouse neurons from 10x genomics3 versions - Latest release: 6 months ago - 8.35 thousand downloads total - 1 maintainer
phantasus 1.22.2
Visual and interactive gene expression analysis3 versions - Latest release: 6 months ago - 11 thousand downloads total - 1 maintainer
BatchQC 1.30.0
Batch Effects Quality Control Software3 versions - Latest release: 6 months ago - 20.5 thousand downloads total - 4 stars on GitHub - 1 maintainer
ccImpute 1.4.0
ccImpute: an accurate and scalable consensus clustering based approach to impute dropout events i...3 versions - Latest release: 6 months ago - 1.65 thousand downloads total - 1 stars on GitHub - 1 maintainer
padma 1.12.0
Individualized Multi-Omic Pathway Deviation Scores Using Multiple Factor Analysis3 versions - Latest release: 6 months ago - 3.61 thousand downloads total - 3 stars on GitHub - 1 maintainer
STATegRa 1.38.0
Classes and methods for multi-omics data integration3 versions - Latest release: 6 months ago - 15.5 thousand downloads total - 2 maintainers
KBoost 1.10.0
Inference of gene regulatory networks from gene expression data3 versions - Latest release: 6 months ago - 2.94 thousand downloads total - 4 stars on GitHub - 1 maintainer
phenopath 1.26.0
Genomic trajectories with heterogeneous genetic and environmental backgrounds3 versions - Latest release: 6 months ago - 1 dependent package - 11 thousand downloads total - 1 maintainer
corral 1.12.0
Correspondence Analysis for Single Cell Data3 versions - Latest release: 6 months ago - 5.22 thousand downloads total - 1 maintainer
Harman 1.30.0
The removal of batch effects from datasets using a PCA and constrained optimisation based technique3 versions - Latest release: 6 months ago - 1 dependent package - 20.4 thousand downloads total - 1 maintainer
Pigengene 1.28.0
Infers biological signatures from gene expression data3 versions - Latest release: 6 months ago - 1 dependent package - 13.6 thousand downloads total - 1 maintainer
scry 1.14.0
Small-Count Analysis Methods for High-Dimensional Data3 versions - Latest release: 6 months ago - 10.8 thousand downloads total - 1 maintainer
PathoStat 1.28.0
PathoStat Statistical Microbiome Analysis Package3 versions - Latest release: 6 months ago - 11.4 thousand downloads total - 8 stars on GitHub - 2 maintainers
esetVis 1.28.2
Visualizations of expressionSet Bioconductor object4 versions - Latest release: 4 months ago - 12.3 thousand downloads total - 1 maintainer
missRows 1.22.0
Handling Missing Individuals in Multi-Omics Data Integration3 versions - Latest release: 6 months ago - 6.95 thousand downloads total - 1 maintainer
systemPipeTools 1.10.0
Tools for data visualization3 versions - Latest release: 6 months ago - 2.93 thousand downloads total - 1 maintainer
acde 1.32.0
Artificial Components Detection of Differentially Expressed Genes3 versions - Latest release: 6 months ago - 14.7 thousand downloads total - 1 maintainer
MultiBaC 1.12.0
Multiomic Batch effect Correction3 versions - Latest release: 6 months ago - 4.52 thousand downloads total - 1 maintainer
AffiXcan 1.20.0
A Functional Approach To Impute Genetically Regulated Expression3 versions - Latest release: 6 months ago - 7.22 thousand downloads total - 1 maintainer
ENmix 1.38.01
Quality control and analysis tools for Illumina DNA methylation BeadChip3 versions - Latest release: 6 months ago - 27.6 thousand downloads total - 1 maintainer
GenomicSuperSignature 1.10.0
Interpretation of RNA-seq experiments through robust, efficient comparison to public databases3 versions - Latest release: 6 months ago - 3.29 thousand downloads total - 12 stars on GitHub - 1 maintainer
COCOA 2.16.0
Coordinate Covariation Analysis3 versions - Latest release: 6 months ago - 7.09 thousand downloads total - 1 maintainer
RiboProfiling 1.32.0
Ribosome Profiling Data Analysis: from BAM to Data Representation and Interpretation3 versions - Latest release: 6 months ago - 16.4 thousand downloads total - 1 maintainer
ramwas 1.26.0
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms3 versions - Latest release: 6 months ago - 12 thousand downloads total - 1 maintainer
MSstatsSampleSize 1.16.0 removed
Simulation tool for optimal design of high-dimensional MS-based proteomics experiment2 versions - Latest release: 6 months ago - 3.89 thousand downloads total - 1 maintainer
mogsa 1.36.0
Multiple omics data integrative clustering and gene set analysis3 versions - Latest release: 6 months ago - 18.3 thousand downloads total - 1 maintainer
rqt 1.28.0
rqt: utilities for gene-level meta-analysis3 versions - Latest release: 6 months ago - 8.75 thousand downloads total - 2 stars on GitHub - 1 maintainer
DiscoRhythm 1.18.0
Interactive Workflow for Discovering Rhythmicity in Biological Data3 versions - Latest release: 6 months ago - 6.91 thousand downloads total - 11 stars on GitHub - 1 maintainer
Top 0.5% on bioconductor.org
4 versions - Latest release: 22 days ago - 146 dependent packages - 2.77 million downloads total - 328 stars on GitHub - 1 maintainer
DESeq2 1.44.0
Differential gene expression analysis based on the negative binomial distribution4 versions - Latest release: 22 days ago - 146 dependent packages - 2.77 million downloads total - 328 stars on GitHub - 1 maintainer
Top 5.2% on bioconductor.org
3 versions - Latest release: 11 days ago - 1 dependent package - 55.1 thousand downloads total - 32 stars on GitHub - 1 maintainer
GENESIS 2.34.0
GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzi...3 versions - Latest release: 11 days ago - 1 dependent package - 55.1 thousand downloads total - 32 stars on GitHub - 1 maintainer
Top 4.6% on bioconductor.org
3 versions - Latest release: 18 days ago - 4 dependent packages - 67.6 thousand downloads total - 315 stars on GitHub - 1 maintainer
PCAtools 2.16.0
PCAtools: Everything Principal Components Analysis3 versions - Latest release: 18 days ago - 4 dependent packages - 67.6 thousand downloads total - 315 stars on GitHub - 1 maintainer
Top 5.4% on bioconductor.org
3 versions - Latest release: 21 days ago - 2 dependent packages - 49.4 thousand downloads total - 52 stars on GitHub - 1 maintainer
pcaExplorer 2.30.0
Interactive Visualization of RNA-seq Data Using a Principal Components Approach3 versions - Latest release: 21 days ago - 2 dependent packages - 49.4 thousand downloads total - 52 stars on GitHub - 1 maintainer
POMA 1.14.0
Tools for Omics Data Analysis3 versions - Latest release: 12 days ago - 1 dependent package - 4.86 thousand downloads total - 10 stars on GitHub - 1 maintainer
Top 3.2% on bioconductor.org
4 versions - Latest release: 12 days ago - 11 dependent packages - 175 thousand downloads total - 96 stars on GitHub - 1 maintainer
SNPRelate 1.38.0
Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data4 versions - Latest release: 12 days ago - 11 dependent packages - 175 thousand downloads total - 96 stars on GitHub - 1 maintainer
iNETgrate 1.2.0
Integrates DNA methylation data with gene expression in a single gene network2 versions - Latest release: 14 days ago - 970 downloads total - 65 stars on GitHub - 1 maintainer
Top 3.8% on bioconductor.org
3 versions - Latest release: 15 days ago - 9 dependent packages - 83.4 thousand downloads total - 1 maintainer
ropls 1.36.0
PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and feature selection of omics data3 versions - Latest release: 15 days ago - 9 dependent packages - 83.4 thousand downloads total - 1 maintainer
Top 4.0% on bioconductor.org
3 versions - Latest release: 15 days ago - 1 dependent package - 70 thousand downloads total - 52 stars on GitHub - 1 maintainer
RTCGA 1.34.0
The Cancer Genome Atlas Data Integration3 versions - Latest release: 15 days ago - 1 dependent package - 70 thousand downloads total - 52 stars on GitHub - 1 maintainer
Top 3.9% on bioconductor.org
3 versions - Latest release: 15 days ago - 1 dependent package - 85.8 thousand downloads total - 1 maintainer
made4 1.78.0
Multivariate analysis of microarray data using ADE43 versions - Latest release: 15 days ago - 1 dependent package - 85.8 thousand downloads total - 1 maintainer
psichomics 1.30.0
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation4 versions - Latest release: 16 days ago - 14.4 thousand downloads total - 33 stars on GitHub - 1 maintainer
gcatest 2.4.0
Genotype Conditional Association TEST3 versions - Latest release: 18 days ago - 10.7 thousand downloads total - 5 stars on GitHub - 1 maintainer
Top 6.9% on bioconductor.org
3 versions - Latest release: 18 days ago - 1 dependent package - 39.3 thousand downloads total - 15 stars on GitHub - 1 maintainer
lfa 2.4.0
Logistic Factor Analysis for Categorical Data3 versions - Latest release: 18 days ago - 1 dependent package - 39.3 thousand downloads total - 15 stars on GitHub - 1 maintainer
MultiRNAflow 1.2.0
An R package for integrated analysis of temporal RNA-seq data with multiple biological conditions2 versions - Latest release: 20 days ago - 720 downloads total - 0 stars on GitHub - 1 maintainer
PLSDAbatch 1.0.0
PLSDA-batch1 version - Latest release: 22 days ago - 186 downloads total - 10 stars on GitHub - 1 maintainer
SurfR 0.99.54
Surface Protein Prediction and Identification1 version - Latest release: 22 days ago - 129 downloads total - 0 stars on GitHub - 1 maintainer
limpca 1.0.0
An R package for the linear modeling of high-dimensional designed data based on ASCA/APCA family ...1 version - Latest release: 22 days ago - 0 stars on GitHub - 1 maintainer
ClustAll 1.0.0
ClustAll: Data driven strategy to find groups of patients within complex diseases1 version - Latest release: 22 days ago - 110 downloads total - 1 maintainer
scPCA 1.16.0
Sparse Contrastive Principal Component Analysis2 versions - Latest release: 6 months ago - 6.51 thousand downloads total - 10 stars on GitHub - 1 maintainer
ChromSCape 1.12.0
Analysis of single-cell epigenomics datasets with a Shiny App2 versions - Latest release: 7 months ago - 4.01 thousand downloads total - 13 stars on GitHub - 1 maintainer
RAIDS 1.0.0
Accurate Inference of Genetic Ancestry from Cancer Sequences1 version - Latest release: 7 months ago - 708 downloads total - 5 stars on GitHub - 1 maintainer
pathwayPCA 1.18.0
Integrative Pathway Analysis with Modern PCA Methodology and Gene Selection2 versions - Latest release: 6 months ago - 1 dependent package - 7.17 thousand downloads total - 11 stars on GitHub - 1 maintainer
ClusterSignificance 1.30.0
The ClusterSignificance package provides tools to assess if class clusters in dimensionality redu...2 versions - Latest release: 6 months ago - 10.7 thousand downloads total - 0 stars on GitHub - 1 maintainer
Related Keywords
Software
55
DimensionReduction
23
GeneExpression
22
Visualization
20
RNASeq
20
Sequencing
17
Clustering
17
StatisticalMethod
14
ImmunoOncology
14
Transcriptomics
13
Normalization
13
Transcription
12
DifferentialExpression
12
Regression
11
Preprocessing
10
Microarray
10
BatchEffect
10
Classification
10
QualityControl
9
SingleCell
8
Pathways
7
MultipleComparison
7
DNAMethylation
7
SystemsBiology
6
GraphAndNetwork
5
GUI
5
Epigenetics
5
DataRepresentation
5
bioconductor
5
Survival
5
Proteomics
5
Metabolomics
5
GeneSetEnrichment
5
DataImport
5
SNP
4
Genetics
4
r
4
GenomeWideAssociation
4
BiomedicalInformatics
4
FunctionalGenomics
4
MassSpectrometry
3
ExperimentalDesign
3
GenePrediction
3
ReportWriting
3
r-package
3
ATACSeq
3
ChIPSeq
3
NetworkInference
3
Network
3
GeneRegulation
3
Bayesian
3
GeneticVariability
3
MethylSeq
3
TimeCourse
3
GenomicVariation
2
Coverage
2
exploratory-data-analysis
2
data-visualization
2
ShinyApps
2
rna-seq-data
2
shiny
2
user-friendly
2
bioinformatics
2
Lipidomics
2
bioconductor-package
2
DecisionTree
2
Infrastructure
2
MultidimensionalScaling
2
Annotation
2
mRNAMicroarray
2
MethylationArray
2
Microbiome
2
DifferentialMethylation
2
gene-expression
1
gtex
1
recount2
1
splicing-quantification
1
sra
1
survival
1
tcga
1
vast-tools
1
FunctionalPrediction
1
differential-splicing-analysis
1
differential-gene-expression
1
data-analyses
1
alternative-splicing
1
DifferentialSplicing
1
AlternativeSplicing
1
cran
1
core-services
1
KEGG
1
BioCarta
1
GeneTarget
1
GeneSignaling
1
FeatureExtraction
1
CopyNumberVariation
1
CellBiology
1
whole-genome-sequencing
1
rna-sequencing
1
rna-seq
1