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Provides a consistent interface for downloading, storing, and accessing immune

proteins. This package contains useful functions to analyze patterns of paired

PinPath enables flexible visualization of (omics) data onto pathways diagrams

plot protein-protein interaction networks, all from inside of R.

proteins localize in to the mitochondria. From these, mitology provides

protein marker channels. simpleSeg can also be used for the normalization

protein expression values. The model parameter estimates can be stabilized

protein interactions and estimating IC50 values from chemoproteomics data. Implements

This R package supports the handling and analysis of imaging

omicsViewer visualizes ExpressionSet (or SummarizedExperiment) in an interactive way. The

Translate differential transcript usage results into discrete splice events.

Visualisation of peptide isotopic peaks and SIP peptide spectra match

proteins) using the hypergeometric distribution. Tailored for speed, this package

netZooR unifies the implementations of several Network Zoo methods (netzoo

PhyloProfile is a tool for exploring complex phylogenetic profiles. Phylogenetic

protein-protein interaction (PPI) networks. GCN inference relies on the popular

A seamless interface to the MEME Suite family of tools

protein quantifications without the need for imputation. The uncertainty of the protein

BgeeCall allows to generate present/absent gene expression calls without using

COSMOS (Causal Oriented Search of Multi-Omic Space) is a

The 'msa' package provides a unified R/Bioconductor interface to the

proteins in a spatially-resolved fashion. These measurements can be visualised

Provides utilities for identifying drug-target interactions for sets of

Local Windows-friendly R Shiny application for RNA-seq differential

chimeraviz manages data from fusion gene finders and provides useful

Provides a comprehensive suite of functions to design and annotate

SpaceTrooper performs Quality Control analysis using data driven GLM models

protein language models into the R environment. Provides unified interfaces

Protein Atlas data. HPAanalyze is designed to fullfill 3 main

protein interactions network. Although the ToppCluster web application provides convenient

This is a R package to compute the automorphisms between

S4 generic functions and classes needed by Bioconductor proteomics packages

Protein Resource (UniProt) is a comprehensive resource for protein sequence

protein isoforms. Our approach infers the presence/absence of protein isoforms

Collection of functions to calculate a nucleotide sequence surrounding for

protein stability of the transcription factors (TFs) of the TSGs

protein identification, profile alignment and biomarker identification. Using Continuous Wavelet

R-package with shiny interface, provides a framework for the

GraphExperiment provides users and developers with an S4 class that

protein-protein-interactions network graph. 'GOAT' reference: Frank Koopmans (2024) <doi:10.1038/s42003-024-06454-5

protein relations as adjacency matrices and connected components, visualise these

protein annotations and mappings between proteins and their encoding transcripts

Interactive R package with an intuitive Shiny-based graphical interface

Fit linear models to overdispersed count data. The package can

The package allows for predicting whether a coiled coil sequence

GO-a-GO annotates Gene Ontology terms that are enriched

`orthogene` is an R package for easy mapping of orthologous

Leverage the existing open access TCGA data on Terra with

protein sequences. GFF files are often used to describe the features

The complexity of high-throughput quantitative omics experiments often leads