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bioconductor-gispa
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public |
GISPA: Method for Gene Integrated Set Profile Analysis
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2025-03-25 |
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bioconductor-gep2pep
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public |
Creation and Analysis of Pathway Expression Profiles (PEPs)
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2025-03-25 |
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bioconductor-netsmooth
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public |
Network smoothing for scRNAseq
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2025-03-25 |
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bioconductor-sampleclassifier
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public |
Sample Classifier
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2025-03-25 |
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bioconductor-neve2006
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public |
expression and CGH data on breast cancer cell lines
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2025-03-25 |
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bioconductor-sigcheck
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public |
Check a gene signature's prognostic performance against random signatures, known signatures, and permuted data/metadata
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2025-03-25 |
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bioconductor-meal
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public |
Perform methylation analysis
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2025-03-25 |
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bioconductor-clusterexperiment
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public |
Compare Clusterings for Single-Cell Sequencing
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2025-03-25 |
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bioconductor-mageckflute
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public |
Integrative Analysis Pipeline for Pooled CRISPR Functional Genetic Screens
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2025-03-25 |
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bioconductor-expressionview
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public |
Visualize biclusters identified in gene expression data
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2025-03-25 |
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bioconductor-eisa
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public |
Expression data analysis via the Iterative Signature Algorithm
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2025-03-25 |
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bioconductor-singscore
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public |
Rank-based single-sample gene set scoring method
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2025-03-25 |
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bioconductor-rcistarget
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public |
RcisTarget Identify transcription factor binding motifs enriched on a list of genes or genomic regions
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2025-03-25 |
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bioconductor-countsimqc
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public |
Compare Characteristic Features of Count Data Sets
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2025-03-25 |
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bioconductor-bloodcancermultiomics2017
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public |
"Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al. - experimental data and complete analysis
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2025-03-25 |
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bioconductor-mogsa
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public |
Multiple omics data integrative clustering and gene set analysis
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2025-03-25 |
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bioconductor-gsvadata
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public |
Data employed in the vignette of the GSVA package
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2025-03-25 |
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bioconductor-gcmapweb
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public |
A web interface for gene-set enrichment analyses
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2025-03-25 |
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bioconductor-gcmap
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public |
Tools for Connectivity Map-like analyses
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2025-03-25 |
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bioconductor-meshr
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public |
Tools for conducting enrichment analysis of MeSH
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2025-03-25 |
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bioconductor-attract
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public |
Methods to Find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape
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2025-03-25 |
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bioconductor-timeseriesexperiment
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public |
Analysis for short time-series data
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2025-03-25 |
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bioconductor-coseq
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public |
Co-Expression Analysis of Sequencing Data
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2025-03-25 |
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bioconductor-cemitool
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public |
Co-expression Modules identification Tool
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2025-03-25 |
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bioconductor-biocor
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public |
Functional similarities
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2025-03-25 |
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bioconductor-aucell
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public |
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)
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2025-03-25 |
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bioconductor-rrbsdata
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public |
An RRBS data set with 12 samples and 10,000 simulated DMRs
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2025-03-25 |
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bioconductor-outrider
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public |
OUTRIDER - OUTlier in RNA-Seq fInDER
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2025-03-25 |
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bioconductor-desubs
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public |
DEsubs: an R package for flexible identification of differentially expressed subpathways using RNA-seq expression experiments
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2025-03-25 |
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bioconductor-omicrexposome
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public |
Exposome and omic data associatin and integration analysis
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2025-03-25 |
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r-htscluster
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public |
A Poisson mixture model is implemented to cluster genes from high- throughput transcriptome sequencing (RNA-seq) data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters).
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2025-03-25 |
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r-isva
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public |
Independent Surrogate Variable Analysis is an algorithm for feature selection in the presence of potential confounding factors (see Teschendorff AE et al 2011, <doi: 10.1093/bioinformatics/btr171>).
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2025-03-25 |
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r-nbpseq
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public |
Negative Binomial (NB) models for two-group comparisons and regression inferences from RNA-Sequencing Data.
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2025-03-25 |
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bioconductor-hd2013sgi
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public |
Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping
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2025-03-25 |
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bioconductor-vidger
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public |
Create rapid visualizations of RNAseq data in R
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2025-03-25 |
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bioconductor-regionreport
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public |
Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
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2025-03-25 |
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bioconductor-eegc
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public |
Engineering Evaluation by Gene Categorization (eegc)
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2025-03-25 |
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bioconductor-assign
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public |
Adaptive Signature Selection and InteGratioN (ASSIGN)
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2025-03-25 |
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r-smartsva
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public |
Introduces a fast and efficient Surrogate Variable Analysis algorithm that captures variation of unknown sources (batch effects) for high-dimensional data sets. The algorithm is built on the 'irwsva.build' function of the 'sva' package and proposes a revision on it that achieves an order of magnitude faster running time while trading no accuracy loss in return.
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2025-03-25 |
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bioconductor-diffcoexp
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public |
Differential Co-expression Analysis
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2025-03-25 |
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r-diffcorr
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public |
A method for identifying pattern changes between 2 experimental conditions in correlation networks (e.g., gene co-expression networks), which builds on a commonly used association measure, such as Pearson's correlation coefficient. This package includes functions to calculate correlation matrices for high-dimensional dataset and to test differential correlation, which means the changes in the correlation relationship among variables (e.g., genes and metabolites) between 2 experimental conditions.
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2025-03-25 |
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bioconductor-kissde
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public |
Retrieves Condition-Specific Variants in RNA-Seq Data
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2025-03-25 |
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bioconductor-impulsede2
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public |
Differential expression analysis of longitudinal count data sets
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2025-03-25 |
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bioconductor-gdcrnatools
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public |
GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data in GDC
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2025-03-25 |
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bioconductor-erssa
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public |
Empirical RNA-seq Sample Size Analysis
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2025-03-25 |
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bioconductor-anota2seq
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public |
Generally applicable transcriptome-wide analysis of translational efficiency using anota2seq
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2025-03-25 |
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bioconductor-scone
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public |
Single Cell Overview of Normalized Expression data
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2025-03-25 |
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bioconductor-msgbsr
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public |
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
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2025-03-25 |
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bioconductor-imetagene
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public |
A graphical interface for the metagene package
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2025-03-25 |
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bioconductor-metagene
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public |
A package to produce metagene plots
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2025-03-25 |
