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bioconductor-coregx
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public |
Classes and Functions to Serve as the Basis for Other 'Gx' Packages
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2024-12-21 |
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bioconductor-nipalsmcia
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public |
Multiple Co-Inertia Analysis via the NIPALS Method
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2024-12-21 |
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bioconductor-gemma.r
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public |
A wrapper for Gemma's Restful API to access curated gene expression data and differential expression analyses
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2024-12-21 |
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r-dinamic.duo
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public |
In tumor tissue, underlying genomic instability can lead to DNA copy number alterations, e.g., copy number gains or losses. Sporadic copy number alterations occur randomly throughout the genome, whereas recurrent alterations are observed in the same genomic region across multiple independent samples, perhaps because they provide a selective growth advantage. Here we use cyclic shift permutations to identify recurrent copy number alterations in a single cohort or recurrent copy number differences in two cohorts based on a common set of genomic markers. Additional functionality is provided to perform downstream analyses, including the creation of summary files and graphics. DiNAMIC.Duo builds upon the original DiNAMIC package of Walter et al. (2011) <doi:10.1093/bioinformatics/btq717> and leverages the theory developed in Walter et al. (2015) <doi:10.1093/biomet/asv046>. A manuscript based on DiNAMIC.Duo is currently under development.
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2024-12-21 |
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bioconductor-hipathia
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public |
HiPathia: High-throughput Pathway Analysis
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2024-12-21 |
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bioconductor-aldex2
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public |
Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account
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2024-12-21 |
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r-cimpl
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public |
No Summary
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2024-12-21 |
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bioconductor-msfeatures
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public |
Functionality for Mass Spectrometry Features
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2024-12-21 |
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bioconductor-qfeatures
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public |
Quantitative features for mass spectrometry data
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2024-12-21 |
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bioconductor-bioga
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public |
Bioinformatics Genetic Algorithm (BioGA)
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2024-12-21 |
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bioconductor-omicspcadata
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public |
Supporting data for package OMICsPCA
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2024-12-21 |
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bioconductor-swath2stats
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public |
Transform and Filter SWATH Data for Statistical Packages
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2024-12-21 |
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bioconductor-survtype
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public |
Subtype Identification with Survival Data
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2024-12-21 |
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bioconductor-repviz
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public |
Replicate oriented Visualization of a genomic region
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2024-12-21 |
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bioconductor-midashla
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public |
R package for immunogenomics data handling and association analysis
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2024-12-21 |
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bioconductor-qtlexperiment
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public |
S4 classes for QTL summary statistics and metadata
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2024-12-21 |
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bioconductor-nanomethviz
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public |
Visualise methylation data from Oxford Nanopore sequencing
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2024-12-21 |
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bioconductor-isobar
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public |
Analysis and quantitation of isobarically tagged MSMS proteomics data
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2024-12-21 |
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bioconductor-brgedata
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public |
Exposures, Gene Expression and Methylation data for ilustration purpouses
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2024-12-21 |
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bioconductor-multimodalexperiment
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public |
Integrative Bulk and Single-Cell Experiment Container
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2024-12-21 |
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bioconductor-chihaya
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public |
Save Delayed Operations to a HDF5 File
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2024-12-21 |
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bioconductor-cellscore
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public |
Tool for Evaluation of Cell Identity from Transcription Profiles
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2024-12-21 |
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bioconductor-chromplot
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public |
Global visualization tool of genomic data
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2024-12-21 |
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bioconductor-intercellar
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public |
InterCellar: an R-Shiny app for interactive analysis and exploration of cell-cell communication in single-cell transcriptomics
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2024-12-21 |
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bioconductor-missrows
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public |
Handling Missing Individuals in Multi-Omics Data Integration
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2024-12-21 |
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bioconductor-supersigs
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public |
Supervised mutational signatures
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2024-12-21 |
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r-noisyr
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public |
Quantifies and removes technical noise from high-throughput sequencing data. Two approaches are used, one based on the count matrix, and one using the alignment BAM files directly. Contains several options for every step of the process, as well as tools to quality check and assess the stability of output.
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2024-12-21 |
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bioconductor-gdrutils
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public |
A package with helper functions for processing drug response data
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2024-12-21 |
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bioconductor-lace
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public |
Longitudinal Analysis of Cancer Evolution (LACE)
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2024-12-21 |
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bioconductor-xcore
|
public |
xcore expression regulators inference
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2024-12-21 |
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bioconductor-qdnaseq
|
public |
Quantitative DNA Sequencing for Chromosomal Aberrations
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2024-12-21 |
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bioconductor-beadarray
|
public |
Quality assessment and low-level analysis for Illumina BeadArray data
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2024-12-21 |
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r-tailfindr
|
public |
An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
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2024-12-21 |
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bioconductor-tbx20bamsubset
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public |
Subset of BAM files from the "TBX20" experiment
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2024-12-21 |
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bioconductor-linkhd
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public |
LinkHD: a versatile framework to explore and integrate heterogeneous data
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2024-12-21 |
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bioconductor-sponge
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public |
Sparse Partial Correlations On Gene Expression
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2024-12-21 |
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bioconductor-cn.mops
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public |
cn.mops - Mixture of Poissons for CNV detection in NGS data
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2024-12-21 |
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bioconductor-moma
|
public |
Multi Omic Master Regulator Analysis
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2024-12-21 |
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bioconductor-proteomm
|
public |
Multi-Dataset Model-based Differential Expression Proteomics Analysis Platform
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2024-12-21 |
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r-rblast
|
public |
Seamlessly interfaces the Basic Local Alignment Search Tool (BLAST) to search genetic sequence data bases. This work was partially supported by grant no. R21HG005912 from the National Human Genome Research Institute.
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2024-12-21 |
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bioconductor-affyplm
|
public |
Methods for fitting probe-level models
|
2024-12-21 |
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rad_haplotyper
|
public |
A program for building SNP haplotypes from RAD sequencing data
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2024-12-21 |
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bioconductor-rontotools
|
public |
R Onto-Tools suite
|
2024-12-21 |
|
eden
|
public |
No Summary
|
2024-12-21 |
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bioconductor-scrapper
|
public |
Bindings to C++ Libraries for Single-Cell Analysis
|
2024-12-21 |
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bioconductor-hicbricks
|
public |
Framework for Storing and Accessing Hi-C Data Through HDF Files
|
2024-12-21 |
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bioconductor-affixcan
|
public |
A Functional Approach To Impute Genetically Regulated Expression
|
2024-12-21 |
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r-ampvis2
|
public |
Tools for visualising amplicon data
|
2024-12-21 |
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bioconductor-alabaster.ranges
|
public |
Load and Save Ranges-related Artifacts from File
|
2024-12-21 |
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hapcut2
|
public |
Tools for haplotype assembly from sequence data
|
2024-12-21 |
