Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
bioconductor projects 1,374
bioconductor: miQC
Flexible, probabilistic metrics for quality control of scRNA-seq dataPapers that mentioned: 1
bioconductor: srnadiff
Finding differentially expressed unannotated genomic regions from RNA-seq dataPapers that mentioned: 1
bioconductor: sscore
S-Score Algorithm for Affymetrix Oligonucleotide MicroarraysPapers that mentioned: 1
bioconductor: AnnotationFilter
Facilities for Filtering Bioconductor Annotation ResourcesPapers that mentioned: 1
bioconductor: MouseFM
In-silico methods for genetic finemapping in inbred micePapers that mentioned: 1
bioconductor: DelayedMatrixStats
Functions that Apply to Rows and Columns of 'DelayedMatrix' ObjectsPapers that mentioned: 1
bioconductor: DEFormats
Differential gene expression data formats converterPapers that mentioned: 1
bioconductor: CytoTree
Papers that mentioned: 1bioconductor: cTRAP
Identification of candidate causal perturbations from differential gene expression dataPapers that mentioned: 1
bioconductor: cytomapper
Visualization of highly multiplexed imaging data in RPapers that mentioned: 1
bioconductor: DAMEfinder
Finds DAMEs - Differential Allelicly MEthylated regionsPapers that mentioned: 1
bioconductor: MethCP
Differential methylation anlsysis for bisulfite sequencing dataPapers that mentioned: 1
bioconductor: memes
motif matching, comparison, and de novo discovery using the MEME SuitePapers that mentioned: 1
bioconductor: matter
A framework for rapid prototyping with file-based data structuresPapers that mentioned: 1
bioconductor: MAGAR
MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation and genotyping dataPapers that mentioned: 1
bioconductor: MACPET
Papers that mentioned: 1bioconductor: methimpute
Imputation-guided re-construction of complete methylomes from WGBS dataPapers that mentioned: 1
bioconductor: metavizr
R Interface to the metaviz web app for interactive metagenomics data analysis and visualizationPapers that mentioned: 1
bioconductor: metaseqR2
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithmsPapers that mentioned: 1
bioconductor: MineICA
Analysis of an ICA decomposition obtained on genomics dataPapers that mentioned: 1
bioconductor: MethTargetedNGS
Perform Methylation Analysis on Next Generation Sequencing DataPapers that mentioned: 1
bioconductor: MesKit
A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic alterationsPapers that mentioned: 1
bioconductor: MeSHDbi
DBI to construct MeSH-related package from sqlite filePapers that mentioned: 1
bioconductor: miRcomp
Tools to assess and compare miRNA expression estimatation methodsPapers that mentioned: 1
bioconductor: MEIGOR
MEIGO - MEtaheuristics for bIoinformatics Global OptimizationPapers that mentioned: 1
bioconductor: MCbiclust
Massive correlating biclusters for gene expression data and associated methodsPapers that mentioned: 1
bioconductor: maPredictDSC
Phenotype prediction using microarray data: approach of the best overall team in the IMPROVER Diagnostic Signature ChallengePapers that mentioned: 1
bioconductor: mAPKL
A Hybrid Feature Selection method for gene expression dataPapers that mentioned: 1
bioconductor: LymphoSeq
Analyze high-throughput sequencing of T and B cell receptorsPapers that mentioned: 1
bioconductor: LPEadj
A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size.Papers that mentioned: 1
bioconductor: LinkHD
LinkHD: a versatile framework to explore and integrate heterogeneous dataPapers that mentioned: 1
bioconductor: CNVRanger
Summarization and expression/phenotype association of CNV rangesPapers that mentioned: 1
bioconductor: ldblock
data structures for linkage disequilibrium measures in populationsPapers that mentioned: 1
bioconductor: mogsa
Multiple omics data integrative clustering and gene set analysisPapers that mentioned: 1
bioconductor: KnowSeq
KnowSeq R/Bioc package: The Smart Transcriptomic PipelinePapers that mentioned: 1
bioconductor: ClassifyR
A framework for cross-validated classification problems, with applications to differential variability and differential distribution testingPapers that mentioned: 1
bioconductor: KinSwingR
KinSwingR: network-based kinase activity predictionPapers that mentioned: 1
bioconductor: iterativeBMAsurv
The Iterative Bayesian Model Averaging (BMA) Algorithm For Survival AnalysisPapers that mentioned: 1
bioconductor: interactiveDisplay
Package for enabling powerful shiny web displays of Bioconductor objectsPapers that mentioned: 1
bioconductor: MSGFplus
Papers that mentioned: 1bioconductor: clonotypeR
Papers that mentioned: 1bioconductor: MSnID
Utilities for Exploration and Assessment of Confidence of LC-MSn Proteomics IdentificationsPapers that mentioned: 1
bioconductor: MSstatsQC
Longitudinal system suitability monitoring and quality control for proteomic experimentsPapers that mentioned: 1
bioconductor: HiCBricks
Framework for Storing and Accessing Hi-C Data Through HDF FilesPapers that mentioned: 1
bioconductor: ChromSCape
Analysis of single-cell epigenomics datasets with a Shiny AppPapers that mentioned: 1
bioconductor: graper
Adaptive penalization in high-dimensional regression and classification with external covariates using variational BayesPapers that mentioned: 1
bioconductor: GmicR
Combines WGCNA and xCell readouts with bayesian network learrning to generate a Gene-Module Immune-Cell network (GMIC)Papers that mentioned: 1