vsn | cran | Package Usage | Ecosyste.ms: Repos

pjshort/SmithLabArray

This package was developed by Tim Rayner at the CIMR (Smith Lab) but has disappeared from CRAN/Bioconductor. Adding latest stable release to my page for anyone in the group to use.

* DESCRIPTION

Size: 8.54 MB - Last synced: over 1 year ago - Pushed: about 9 years ago

lgatto/MSnbase

Base Classes and Functions for Mass Spectrometry and Proteomics

* DESCRIPTION

Size: 96.9 MB - Last synced: 20 days ago - Pushed: 21 days ago

matheuscburger/myArrayQualityMetrics

>= 3.23.3 DESCRIPTION

Size: 691 KB - Last synced: about 1 year ago - Pushed: over 10 years ago

rformassspectrometry/QFeatures

Quantitative features for mass spectrometry data

* DESCRIPTION

Size: 21.4 MB - Last synced: 23 days ago - Pushed: 23 days ago

rseng/rsepedia-analysis

Exploring clustering of research software encyclopedia entries

* _repos/github/pmoulos/metaseqR2/DESCRIPTION

Size: 435 MB - Last synced: 21 days ago - Pushed: 22 days ago

yilinwu123/precision1

* DESCRIPTION

Size: 55.4 MB - Last synced: over 1 year ago - Pushed: almost 2 years ago

pimentel/DESeq2paper

A fork of http://www-huber.embl.de/DESeq2paper/

* DESCRIPTION

Size: 2.7 MB - Last synced: 8 months ago - Pushed: almost 9 years ago

hbc/bcbioRNASeq

R package for bcbio RNA-seq analysis.

* DESCRIPTION

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

cran/limma

Linear Models for Microarray Data

* DESCRIPTION

Size: 6.52 MB - Last synced: 10 months ago - Pushed: about 10 years ago

wenbostar/metaX

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

* DESCRIPTION

Size: 51.2 MB - Last synced: 9 months ago - Pushed: 12 months ago

thelovelab/DESeq2

Differential expression of RNA-seq data using the Negative Binomial

* DESCRIPTION

Size: 3.67 MB - Last synced: 19 days ago - Pushed: about 2 months ago

uzh/ezRun

An R meta-package for the analysis of Next Generation Sequencing data

* DESCRIPTION

Size: 131 MB - Last synced: 1 day ago - Pushed: 1 day ago

Huber-group-EMBL/mofaCLL

* DESCRIPTION

Size: 108 MB - Last synced: 3 months ago - Pushed: 3 months ago

fgcz/prolfqua

Differential Expression Analysis tool box R lang package for omics data

* DESCRIPTION

Size: 763 MB - Last synced: 14 days ago - Pushed: 14 days ago

bedapub/ribiosNGS

Next-generation sequencing data analysis with ribios

* DESCRIPTION

Size: 22.3 MB - Last synced: 8 months ago - Pushed: 8 months ago

statOmics/MSqRob

Robust statistical inference for quantitative LC-MS proteomics

* DESCRIPTION

Size: 14.6 MB - Last synced: 8 months ago - Pushed: over 1 year ago

The NetPhorce Package provies tools to performs data filtering steps, quality control, statistical analysis, data visualization, and network inference for phosphoproteomics data. Phosphorylation of proteins can regulate their turnover and activity, and phosphorylation at different sites can facilitate distinct programs of regulations.

* DESCRIPTION

Size: 8.32 MB - Last synced: 16 days ago - Pushed: about 1 year ago

cran/NanoStringNorm

:exclamation: This is a read-only mirror of the CRAN R package repository. NanoStringNorm — Normalize NanoString miRNA and mRNA Data

>= 3.22.0 DESCRIPTION

Size: 5.25 MB - Last synced: 7 months ago - Pushed: over 3 years ago

mathiaskalxdorf/IceR

Quantitative proteomics workflow

* DESCRIPTION

Size: 4.24 MB - Last synced: 8 months ago - Pushed: over 1 year ago

r-pkg-team/r-bioc-limma

r-bioc-limma packaging

* DESCRIPTION

Last synced: over 1 year ago

r-pkg-team/r-bioc-deseq2

r-bioc-deseq2 packaging

* DESCRIPTION

Last synced: over 1 year ago

r-pkg-team/r-bioc-deseq

GNU R differential gene expression analysis based on negative binomial distribution

* DESCRIPTION

Last synced: over 1 year ago

guillaumecharbonnier/colab-r-libs

A test to see how I could save installation time for R libs each time I start a Colab notebook

* DESeq2/DESCRIPTION

Size: 156 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

uclahs-cds/public-R-NanoStringNormCNV

Helper Functions to Normalize NanoString CNV Data

>= 3.22.0 DESCRIPTION

Size: 9.51 MB - Last synced: 8 months ago - Pushed: over 2 years ago

mjktfw/limma

This is a read-only mirror of the Bioconductor SVN repository. Contributions: http://bioinf.wehi.edu.au/limma. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=limma. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/limma

* DESCRIPTION

Size: 18.2 MB - Last synced: 7 months ago - Pushed: almost 9 years ago

msooknah/dge-pipeline

* R/lib/DESeq2/DESCRIPTION
* R/lib/limma/DESCRIPTION

Size: 517 MB - Last synced: over 1 year ago

r-pkg-team/r-bioc-ggbio

Visualization tools for genomic data

* DESCRIPTION

Last synced: over 1 year ago

richierocks/limma2

Linear Models for Microarray Data, Remixed

* DESCRIPTION

Size: 1.22 MB - Last synced: 10 months ago - Pushed: over 10 years ago

tnaake/MatrixQCvis

>= 3.59.1 DESCRIPTION

Size: 4.47 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

rformassspectrometry/MsCoreUtils

Core Utils for Mass Spectrometry Data

* DESCRIPTION

Size: 12.5 MB - Last synced: 15 days ago - Pushed: about 1 month ago

prostarproteomics/DAPAR

* DESCRIPTION

Size: 33.2 MB - Last synced: 2 months ago - Pushed: 2 months ago

arnesmits/DEP

DEP package

* DESCRIPTION

Size: 19.5 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

lawremi/ggbio

Grid and ggplot2 based visualization for biological data

* DESCRIPTION

Size: 22.7 MB - Last synced: 9 days ago - Pushed: 7 months ago

gwangjinkim/rnaseqeasy

Downstream analysis of bulk RNAseq (beginning from count files).

* DESCRIPTION

Last synced: almost 2 years ago

genome-vendor/r-bioc-lumi

Unofficial repo for software vendoring or packaging purposes

* DESCRIPTION

Size: 5.64 MB - Last synced: about 1 year ago - Pushed: about 12 years ago

MartinFXP/bnem

Boolean Nested Effect Models - https://doi.org/10.1093/bioinformatics/btv680 - https://bioconductor.org/packages/bnem

* DESCRIPTION

Size: 4.86 MB - Last synced: 2 days ago - Pushed: about 1 month ago

vivekbhr/AlleleExplorer

Tools for analysis of alleleSpecific mapping

* AlleleExplorer/DESCRIPTION

Size: 104 KB - Last synced: over 1 year ago - Pushed: over 7 years ago

ComputationalProteomics/NormalyzerDE

Tools for normalization, evaluation of outliers, technical biases and batch effects and differential expression analysis.

* DESCRIPTION

Size: 5.88 MB - Last synced: 18 days ago - Pushed: 18 days ago

bnoperator/mavsn

* DESCRIPTION

Size: 844 KB - Last synced: over 1 year ago

UCLouvain-CBIO/scp

Single cell proteomics data processing

* DESCRIPTION

Size: 64.2 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

abhivij/bloodbased-pancancer-diagnosis

Benchmarking study of feature extraction methods for cancer diagnosis using blood-based biomarkers. Feature extraction methods are compared both in terms of their performance and robustness

* FEMPipeline/DESCRIPTION

Size: 6.25 MB - Last synced: 6 months ago - Pushed: 6 months ago

grmwld/ggbio

Unofficial mirror of the svn repository of the ggbio package (http://tengfei.github.com/ggbio/)

* DESCRIPTION

Size: 2.36 MB - Last synced: about 2 months ago - Pushed: over 10 years ago

pmoulos/metaseqR-local 📦

An R package for the analysis, meta-analysis and result reporting of RNA-Seq gene expression data

* DESCRIPTION

Size: 44.7 MB - Last synced: over 1 year ago - Pushed: about 5 years ago

kwanjeeraw/metabox2

* DESCRIPTION

Size: 12.2 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

tischi/scripts

* R/cellHTS2/DESCRIPTION

Size: 214 MB - Last synced: about 1 year ago - Pushed: over 8 years ago

uclahs-cds/public-R-NanoStringNorm

NanoStringNorm

>= 3.22.0 DESCRIPTION

Size: 1.49 MB - Last synced: 8 months ago - Pushed: about 1 year ago

bnoperator/shinyvsn

* DESCRIPTION

Size: 2.92 MB - Last synced: over 1 year ago

markdunning/beadarray-devel

Developmental copy of beadarray

* DESCRIPTION

Size: 1.63 MB - Last synced: 10 months ago - Pushed: over 10 years ago

Coayala/MetaboTandem

Analysis pipeline for LC-MS/MS data

* DESCRIPTION

Size: 21.6 MB - Last synced: 2 months ago - Pushed: 2 months ago

wlzhang/nanostringnorm

>= 3.22.0 DESCRIPTION

Size: 968 KB - Last synced: over 1 year ago

fmicompbio/einprot

Proteomics analysis workflows

* DESCRIPTION

Size: 24 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

VafaeeLab/bloodbased-pancancer-diagnosis Fork of abhivij/bloodbased-pancancer-diagnosis

Benchmarking study of feature extraction methods for cancer diagnosis using blood-based biomarkers. Feature extraction methods are compared both in terms of their performance and robustness

* FEMPipeline/DESCRIPTION

Size: 6.25 MB - Last synced: 10 months ago - Pushed: 12 months ago

hjanime/DESeq2paper Fork of pimentel/DESeq2paper

A fork of http://www-huber.embl.de/DESeq2paper/

* DESCRIPTION

Size: 2.7 MB - Last synced: about 1 year ago - Pushed: almost 9 years ago

cvanderaa/QFeatures Fork of rformassspectrometry/QFeatures

Quantitative features for mass spectrometry data

* DESCRIPTION

Size: 16.2 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

tjthurman/proteoDA Fork of ByrumLab/proteoDA

* DESCRIPTION

Size: 7.84 MB - Last synced: 5 months ago - Pushed: 5 months ago

m-jahn/R-tools

often used R scripts for bio-informatics work and plotting

* DESCRIPTION

Size: 2.21 MB - Last synced: 3 months ago - Pushed: over 1 year ago

cran/brt

:exclamation: This is a read-only mirror of the CRAN R package repository. brt — Biological Relevance Testing

* DESCRIPTION

Size: 201 KB - Last synced: 10 months ago - Pushed: about 6 years ago

samWieczorek/old_DaparToolshed

* DESCRIPTION

Size: 26.9 MB - Last synced: 8 months ago - Pushed: 8 months ago

jseoane/ggbio Fork of grmwld/ggbio

Unofficial mirror of the svn repository of the ggbio package (http://tengfei.github.com/ggbio/)

* DESCRIPTION

Size: 2.36 MB - Last synced: over 1 year ago - Pushed: over 10 years ago

scchess/limma Fork of mjktfw/limma

This is a read-only mirror of the Bioconductor SVN repository. Contributions: http://bioinf.wehi.edu.au/limma. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=limma. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/limma

* DESCRIPTION

Size: 18.2 MB - Last synced: over 1 year ago - Pushed: almost 9 years ago

lran2008/metaseqr Fork of pmoulos/metaseqR-local

An R package for the analysis, meta-analysis and result reporting of RNA-Seq gene expression data

* DESCRIPTION

Size: 45 MB - Last synced: over 1 year ago - Pushed: almost 9 years ago

nlhuong/ZeroInflatedDESeq2

DESeq2 with Zero inflated Negative Binomial model (instead of negative binomial)

* DESCRIPTION

Size: 3.72 MB - Last synced: 10 months ago - Pushed: over 8 years ago

ZhengWeihuaYNU/ZeroInflatedDESeq2 Fork of nlhuong/ZeroInflatedDESeq2

DESeq2 with Zero inflated Negative Binomial model (instead of negative binomial)

* DESCRIPTION

Size: 3.72 MB - Last synced: about 1 year ago - Pushed: over 8 years ago

nturaga/DESeq2_test

tests for DESeq2(or any bioc-package) on the git server.

* DESCRIPTION

Size: 727 KB - Last synced: about 1 year ago - Pushed: over 7 years ago

dronga/ggbio Fork of grmwld/ggbio

Unofficial mirror of the svn repository of the ggbio package (http://tengfei.github.com/ggbio/)

* DESCRIPTION

Size: 2.17 MB - Last synced: over 1 year ago - Pushed: almost 9 years ago

yilinwu123/precision2

* DESCRIPTION

Size: 55.4 MB - Last synced: over 1 year ago - Pushed: almost 2 years ago

LXQin/PRECISION.array

* DESCRIPTION

Size: 110 MB - Last synced: 8 months ago - Pushed: almost 2 years ago

TalhoukLab/biostatUtil

Biostatistics utility functions

* DESCRIPTION

Size: 162 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

wangbokai/DESeq2 Fork of zihua/DESeq2

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/DESeq2.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=DESeq2.

* DESCRIPTION

Size: 2.11 MB - Last synced: 3 months ago - Pushed: over 8 years ago

josephbarry/imageHTS

* DESCRIPTION

Size: 1.94 MB - Last synced: 8 months ago - Pushed: over 6 years ago

warnes/DESeq2 Fork of zihua/DESeq2

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/DESeq2.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=DESeq2.

* DESCRIPTION

Size: 1.75 MB - Last synced: 10 months ago - Pushed: over 8 years ago

soccin/BIC-RNAseq

Bioinformatics core RNAseq pipeline

* lib/R-4.0.0/DESeq/DESCRIPTION
* lib/R-4.0.0/limma/DESCRIPTION

Size: 215 MB - Last synced: over 1 year ago - Pushed: almost 2 years ago

chernan/Prots4Prots

Quantitation Protocols for Proteomics Data from Mass Spectrometry

* DESCRIPTION

Size: 273 KB - Last synced: about 1 year ago - Pushed: over 11 years ago

NicWir/VisomX

An R package for User-Friendly and Comprehensive Analysis and Visualization of Omics Data

* DESCRIPTION

Size: 19.2 MB - Last synced: 3 months ago - Pushed: 3 months ago

LKress/Microarray

>= 1.4.10 arrayMagicDaten/DESCRIPTION

Size: 5.58 MB - Last synced: over 1 year ago - Pushed: over 4 years ago

gigascience/cuddel-gsk-dataset

Reproducibility study on a metabolomics dataset

* R/metax/DESCRIPTION

Size: 3.4 MB - Last synced: 2 months ago - Pushed: 6 months ago

jdhenaos/coexnet

* DESCRIPTION

Size: 1.68 MB - Last synced: over 1 year ago - Pushed: about 2 years ago

brucemoran/limma Fork of cran/limma

Linear Models for Microarray Data

* DESCRIPTION

Size: 6.52 MB - Last synced: about 1 year ago - Pushed: about 10 years ago

holgerman/HT12ProcessoR

Preprocessing ILLUMINA HT12v4 data intended for project up to thousands of samples

* DESCRIPTION

Size: 185 MB - Last synced: 9 months ago - Pushed: about 3 years ago

changebio/DESeq2 Fork of zihua/DESeq2

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/DESeq2.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=DESeq2.

* DESCRIPTION

Size: 1.78 MB - Last synced: over 1 year ago - Pushed: over 8 years ago

teyden/asthma-research

* packrat/lib/x86_64-apple-darwin18.2.0/3.5.2/limma/DESCRIPTION

Size: 572 MB - Last synced: 10 months ago - Pushed: over 4 years ago

samWieczorek/old_DAPAR

Tools for the Differential Analysis of Proteins Abundance with R

* DESCRIPTION

Size: 32.4 MB - Last synced: 8 months ago - Pushed: about 2 years ago

prostarproteomics/DaparToolshed

* DESCRIPTION

Size: 30.4 MB - Last synced: 3 days ago - Pushed: 3 days ago

shameer/lumi

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/lumi.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=lumi.