BiocStyle | cran | Package Usage

drisso/archive-EDASeq

Archived version of EDASeq

* DESCRIPTION

Size: 190 KB - Last synced: 7 months ago - Pushed: over 7 years ago

statOmics/TargetDecoy

Diagnostic Plots to Evaluate the Target Decoy Approach

* DESCRIPTION

Size: 14.8 MB - Last synced: 6 months ago - Pushed: over 1 year ago

powellgenomicslab/Nebulosa

R package to visualize gene expression data based on weighted kernel density estimation

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Size: 264 KB - Last synced: about 1 month ago - Pushed: 3 months ago

rikenbit/AHLRBaseDbs

Supplies AnnotationHub with LRbaseDb Ligand-Receptor annotation databases for many species.

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Size: 75.2 KB - Last synced: 3 months ago - Pushed: 3 months ago

BaderLab/netDx

R package with netDx software and data for examples

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Size: 115 MB - Last synced: 2 months ago - Pushed: over 1 year ago

aoles/RBioFormats

:books: R interface to the Bio-Formats library

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Size: 118 MB - Last synced: 24 days ago - Pushed: 25 days ago

ceabiodb/biodb 📦

An R package framework for accessing biological and chemical databases and developing or extending new connectors.

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* inst/templates/DESCRIPTION

Size: 9.68 MB - Last synced: 4 months ago - Pushed: over 1 year ago

prostarproteomics/MagellanNTK

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Size: 5.86 MB - Last synced: 3 days ago - Pushed: 3 days ago

jtleek/sva-devel

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Size: 386 KB - Last synced: 2 months ago - Pushed: about 1 year ago

Distue/limmas

Linear models for mass spectrometry

* limmas/DESCRIPTION

Size: 4.88 MB - Last synced: 7 months ago - Pushed: over 8 years ago

Bioconductor/GenomicFeatures

Conveniently import and query gene models

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Size: 45.7 MB - Last synced: 17 days ago - Pushed: 26 days ago

MatthiasLienhard/qsea

QSEA bioconductor package

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Size: 381 KB - Last synced: 7 months ago - Pushed: about 1 year ago

IlyaLab/CombiningDependentPvaluesUsingEBM

Python, R and Matlab implementation of Brown's Method to combine dependent P-values

* R/EmpiricalBrownsMethod/DESCRIPTION

Size: 703 KB - Last synced: about 1 month ago - Pushed: over 6 years ago

KechrisLab/MSPrep

A processing pipeline for the summarization, normalization and diagnostics of mass spectrometry–based metabolomics data.

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Size: 5.18 MB - Last synced: 6 months ago - Pushed: over 2 years ago

Bioconductor/spbtest3

Test package for the Single Package Builder

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Size: 186 KB - Last synced: 17 days ago - Pushed: about 1 year ago

SimoneTiberi/DifferentialRegulation

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Size: 15.2 MB - Last synced: 2 months ago - Pushed: 4 months ago

immunogenomics/presto

Fast Wilcoxon and auROC

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Size: 3.07 MB - Last synced: 2 months ago - Pushed: 2 months ago

lgatto/Pbase

Manipluating and exploring protein and proteomics data

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Size: 24.2 MB - Last synced: 7 months ago - Pushed: almost 5 years ago

hbc/bcbioRNASeq

R package for bcbio RNA-seq analysis.

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Size: 318 MB - Last synced: about 1 month ago - Pushed: about 2 months ago

Codezy99/cliProfiler

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Size: 232 KB - Last synced: 6 months ago - Pushed: over 2 years ago

bhklab/bioc2022workshop

A workshop on drug combination experiment support in CoreGx and PharmacoGx.

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Size: 143 MB - Last synced: about 1 month ago - Pushed: about 1 year ago

zhangyuqing/simulatorZ

simulates collections of independent genomic data sets, and performs within- and across-study training and validation with predicting algorithms

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Size: 353 KB - Last synced: 2 months ago - Pushed: over 3 years ago

wejlab/BatchQC

Batch Effects Quality Control Software

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Size: 44.6 MB - Last synced: 4 days ago - Pushed: 4 days ago

Bioconductor/basilisk

Clone of the Bioconductor repository for the basilisk package.

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Size: 545 KB - Last synced: 17 days ago - Pushed: 24 days ago

MarcElosua/SPOTlight

Spatial Transcriptomics Capture Location Deconvolution

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Size: 222 MB - Last synced: 21 days ago - Pushed: 3 months ago

Japrin/STARTRAC

STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)

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Size: 1.2 MB - Last synced: 6 months ago - Pushed: 6 months ago

stemangiola/tidybulk

Brings bulk and pseudobulk transcriptomics to the tidyverse

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Size: 97.2 MB - Last synced: 9 days ago - Pushed: 10 days ago

Bioconductor/AnVIL

Interact with AnVIL and Leonardo projects

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Size: 1.22 MB - Last synced: 11 days ago - Pushed: 11 days ago

npechl/lineagespot

Ιdentify and assign different SARS-CoV-2 lineages based on a single VCF file

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Size: 14.5 MB - Last synced: 7 months ago - Pushed: over 2 years ago

songfd2018/BUSseq

R package submitted to Bioconductor

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Size: 2.38 MB - Last synced: 7 days ago - Pushed: almost 3 years ago

Vitek-Lab/MSstats

R package - MSstats

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Size: 8.63 MB - Last synced: 8 days ago - Pushed: 8 days ago

tidymass/massdataset

tidymass class of dataset.

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Size: 63.7 MB - Last synced: 8 days ago - Pushed: 8 days ago

vjcitn/Rcollectl

simple interface to collectl output

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Size: 734 KB - Last synced: 17 days ago - Pushed: about 1 year ago

nicolaroberts/hdp

R pkg for Hierarchical Dirichlet Process

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Size: 51.8 MB - Last synced: about 1 year ago - Pushed: about 6 years ago

csoneson/compcodeR

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Size: 4.2 MB - Last synced: 7 days ago - Pushed: 8 days ago

CTrierMaansson/DNAfusion

Identification of gene-fusions, including EML4-ALK

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Size: 63.1 MB - Last synced: about 1 month ago - Pushed: 7 months ago

LiesaSalzer/MobilityTransformR

Effective mobility Transformation for CE-MS data

>= 2.5.19 DESCRIPTION

Size: 290 MB - Last synced: 5 days ago - Pushed: about 2 years ago

plger/scDblFinder

Methods for detecting doublets in single-cell sequencing data

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Size: 12.3 MB - Last synced: about 1 month ago - Pushed: 2 months ago

haoharryfeng/ISLET

Individual-Specific ceLl typE referencing Tool

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Size: 3.55 MB - Last synced: 8 months ago - Pushed: 8 months ago

PeeperLab/CopywriteR

DNA copy number detection from off-target sequence data

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Size: 2.62 MB - Last synced: 2 months ago - Pushed: about 6 years ago

adeschen/similaRpeak

Bioconductor Package - Metrics to estimate the level of similarity between two ChIP-Seq profiles

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Size: 535 KB - Last synced: 6 months ago - Pushed: about 2 years ago

Bioconductor/LearnBioconductor

Training material for introductory R / Bioconductor courses

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Size: 3.38 MB - Last synced: 17 days ago - Pushed: about 1 year ago

BIMIB-DISCo/TRONCO

Repository of the TRanslational ONCOlogy library, which includes various algorithms (such as CAPRESE and CAPRI) and the Pipeline for Cancer Inference (PICNIC).

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Size: 14.6 MB - Last synced: 16 days ago - Pushed: 18 days ago

bd2kccd/r-causal

R Wrapper for Tetrad Library

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Size: 75.9 MB - Last synced: about 2 months ago - Pushed: 9 months ago

Bioconductor/S4Vectors

Foundation of vector-like and list-like containers in Bioconductor

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Size: 1.52 MB - Last synced: 17 days ago - Pushed: 25 days ago

Bioconductor/GenomicDataCommons

Provide R access to the NCI Genomic Data Commons portal.

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Size: 4.38 MB - Last synced: 17 days ago - Pushed: 19 days ago

Oshlack/splatter

Simple simulation of single-cell RNA sequencing data

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Size: 57.1 MB - Last synced: about 2 months ago - Pushed: 2 months ago

hansenlab/minfi

Devel repository for minfi

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Size: 1.04 MB - Last synced: 8 days ago - Pushed: 26 days ago

aertslab/RcisTarget

RcisTarget: Transcription factor binding motif enrichment

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Size: 82.7 MB - Last synced: 3 months ago - Pushed: 3 months ago

Bioconductor/zlibbioc

An R packaged zlib-1.2.5

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Size: 226 KB - Last synced: 17 days ago - Pushed: 24 days ago

lpantano/DEGreport

Create a cromphensive report of DEG list coming from any analysis of RNAseq data

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Size: 51.7 MB - Last synced: 12 days ago - Pushed: 3 months ago

frankkramer-lab/ndexr

R client library for NDEx

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Size: 961 KB - Last synced: 2 months ago - Pushed: about 1 year ago

aoles/EBImage

:art: Image processing toolbox for R

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Size: 7.01 MB - Last synced: 18 days ago - Pushed: 2 months ago

saezlab/dorothea

R package to access DoRothEA's regulons

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Size: 393 MB - Last synced: 9 days ago - Pushed: 3 months ago

saezlab/progeny

R package for Pathway RespOnsive GENe activity inference

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Size: 47.9 MB - Last synced: 10 days ago - Pushed: over 1 year ago

drisso/archive-RUVSeq

Archived version of RUVSeq

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Size: 63.5 KB - Last synced: 7 months ago - Pushed: about 7 years ago

phenomecentre/peakPantheR

On-instrument and post-acquisition targeted feature extraction

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Size: 4.51 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

rcastelo/GSVA

Gene set variation analysis

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Size: 5.93 MB - Last synced: 16 days ago - Pushed: 17 days ago

DiogoVeiga/maser

Mapping Alternative Splicing Events to pRoteins

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Size: 4.68 MB - Last synced: 6 months ago - Pushed: over 2 years ago

catavallejos/BASiCS

BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/packages/BASiCS/ for the official release version

* DESCRIPTION

Size: 90.4 MB - Last synced: 2 months ago - Pushed: 2 months ago

gagneurlab/OUTRIDER

OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data

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Size: 10.9 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

wenbostar/metaX

metaX: a flexible and comprehensive software for processing omics data.

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Size: 51.2 MB - Last synced: 9 months ago - Pushed: 11 months ago

khughitt/EuPathDB

EuPathDB recipe for the Bioconductor AnnotationHub

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Size: 3.19 MB - Last synced: 7 months ago - Pushed: 7 months ago

Jiefei-Wang/gpuMagic

An R interface to write OpenCL functions

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Size: 859 KB - Last synced: 5 months ago - Pushed: about 2 years ago

NKI-GCF/XenofilteR

Filtering of PDX samples for mouse derived reads

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Size: 290 KB - Last synced: 2 months ago - Pushed: over 1 year ago

lgatto/pRoloc

A unifying bioinformatics framework for organelle proteomics

>= 2.5.19 DESCRIPTION

Size: 210 MB - Last synced: 13 days ago - Pushed: 2 months ago

federicomarini/GeneTonic

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

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Size: 115 MB - Last synced: 17 days ago - Pushed: 24 days ago

saezlab/CARNIVAL

CAusal Reasoning for Network Identification with integer VALue programming in R

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Size: 13.3 MB - Last synced: 9 days ago - Pushed: 6 months ago

philipmorrisintl/GladiaTOX

GladiaTOX is an open-source solution for HCS data processing and reporting that expands the toxcast pipeline package

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Size: 9.37 MB - Last synced: 7 months ago - Pushed: 9 months ago

Bioconductor/VariantAnnotation

Annotation of Genetic Variants

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Size: 3.67 MB - Last synced: 17 days ago - Pushed: 24 days ago

LTLA/scran.chan

A slimmed down version of scran, based on the C++ library of the same name.

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Size: 361 KB - Last synced: 2 months ago - Pushed: 5 months ago

bhklab/genefu

R package providing various functions relevant for gene expression analysis with emphasis on breast cancer.

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Size: 30.6 MB - Last synced: about 1 month ago - Pushed: over 1 year ago

LTLA/SingleR

Clone of the Bioconductor repository for the SingleR package.

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Size: 1.1 MB - Last synced: 3 days ago - Pushed: 4 days ago

carmonalab/UCell

An R package for single-cell gene signature scoring

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Size: 30.8 MB - Last synced: about 2 months ago - Pushed: 3 months ago

NathanSkene/EWCE

Expression Weighted Celltype Enrichment. See the package website for up-to-date instructions on usage.

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Size: 35.2 MB - Last synced: 24 days ago - Pushed: 25 days ago

mixOmicsTeam/mixOmics

Development repository for the Bioconductor package 'mixOmics '

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Size: 16.1 MB - Last synced: 7 months ago - Pushed: 7 months ago

GabrielHoffman/variancePartition

Quantify and interpret divers of variation in multilevel gene expression experiments

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Size: 75.1 MB - Last synced: 9 days ago - Pushed: 9 days ago

zellerlab/siamcat

R package for Statistical Inference of Associations between Microbial Communities And host phenoType

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Size: 64.4 MB - Last synced: 4 months ago - Pushed: 4 months ago

daniellyz/MergeION2

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Size: 257 MB - Last synced: 4 months ago - Pushed: 4 months ago

almeidasilvaf/bears

An R package to create gene expression atlases from bulk RNA-seq data on NCBI SRA

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Size: 5.17 MB - Last synced: 17 days ago - Pushed: about 1 year ago

ymo-beckman/PeacoQC Fork of saeyslab/PeacoQC

Peak-based selection of high quality cytometry data

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Size: 5.56 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

almeidasilvaf/syntenet

An R package to infer and analyze synteny networks from protein sequences

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Size: 75 MB - Last synced: 3 days ago - Pushed: 2 months ago

alanocallaghan/scater

Clone of the Bioconductor repository for the scater package.

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Size: 7.72 MB - Last synced: 2 months ago - Pushed: 4 months ago

UCSF-DSCOLAB/cyclone

* cyclone/DESCRIPTION

Size: 15.4 MB - Last synced: 6 months ago - Pushed: 6 months ago

EmanuelSoda/ScreenR

An R package that enables the user to perform High Throughput Biological Screening.

>= 2.22.0 DESCRIPTION

Size: 44.6 MB - Last synced: 5 days ago - Pushed: 8 months ago

Bioconductor/AnVILPublish

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Size: 81.1 KB - Last synced: 17 days ago - Pushed: 24 days ago

fmicompbio/eisaR

Exon-Intron Split Analysis (EISA) in R

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Size: 12.3 MB - Last synced: 2 months ago - Pushed: 2 months ago

This package provides a framework for the quantification and analysis of Short Reads. It covers a complete workflow starting from raw sequence reads, over creation of alignments and quality control plots, to the quantification of genomic regions of interest.