R Observatory
Menu
Search

Packages

Downloads

Distinct IPs a month

Licence

Licence family offered

Topic: Transcription or MassSpectrometry

biocViews term

Category

People
AI tools

AI coding tool

AI tool found as

Model named in commits

Code

Source repository on GitHub known

Dates
First letter

First letter

Release: Release 3.1 (2015)

In the current release or not

Bioconductor release

Clear all

107 packages on Bioconductor tagged Transcription or MassSpectrometry, most distinct IPs first

Transcription and MassSpectrometry in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
DESeq2
Differential gene expression analysis based on the negative binomial distributionMichael Love		Michael Lovesoftware28 Apr 202632,07254
ProtGenerics
Generic infrastructure for Bioconductor mass spectrometry packagesLaurent Gatto		Laurent Gattosoftware28 Apr 202613,0181
mzR
parser for netCDF, mzXML and mzML and mzIdentML files (mass spectrometry data)Steffen Neumann		Steffen Neumannsoftware28 Apr 20265,63915
MSnbase
Base Functions and Classes for Mass Spectrometry and ProteomicsLaurent Gatto		Laurent Gattosoftware9 Aug 20265,521134
TFBSTools
Software Package for Transcription Factor Binding Site (TFBS) AnalysisGe Tan		Ge Tansoftware28 Apr 20264,72179
mzID
An mzIdentML parser for RLaurent Gatto		Laurent Gattosoftware28 Apr 20264,53211
xcms
LC-MS and GC-MS Data AnalysisSteffen Neumann		Steffen Neumannsoftware7 Jul 20263,537143
MassSpecWavelet
Peak Detection for Mass Spectrometry data using wavelet-based algorithmsSergio Oller Moreno		Sergio Oller Morenosoftware7 Jul 20263,0960
goseq
Gene Ontology analyser for RNA-seq and other length biased dataFederico Marini		Federico Marinisoftware28 Apr 20262,404104
pRoloc
A unifying bioinformatics framework for spatial proteomicsLisa Breckels		Lisa Breckelssoftware28 Apr 20261,689230
MSstats
Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics ExperimentsMeena Choi		Meena Choisoftware28 Apr 20261,586100
CAMERA
Collection of annotation related methods for mass spectrometry dataSteffen Neumann		Steffen Neumannsoftware28 Apr 20261,548157
Rdisop
Decomposition of Isotopic PatternsSteffen Neumann		Steffen Neumannsoftware28 Apr 20261,5083
qpgraph
Estimation of Genetic and Molecular Regulatory Networks from High-Throughput Genomics DataRobert Castelo		Robert Castelosoftware28 Apr 20261,49581
Cardinal
A mass spectrometry imaging toolbox for statistical analysisKylie Ariel Bemis		Kylie Ariel Bemissoftware28 Apr 20261,40531
rpx
R Interface to the ProteomeXchange RepositoryLaurent Gatto		Laurent Gattosoftware29 Sep 20261,32946
rols
An R interface to the Ontology Lookup ServiceSehyun Oh		Sehyun Ohsoftware12 Oct 20261,30422
MSnID
Utilities for Exploration and Assessment of Confidence of LC-MSn Proteomics IdentificationsVlad Petyuk		Vlad Petyuksoftware28 Apr 20261,236169
SGSeq
Splice event prediction and quantification from RNA-seq dataLeonard Goldstein		Leonard Goldsteinsoftware28 Apr 20261,22780
TPP
Analyze thermal proteome profiling (TPP) experimentsDorothee Childs		Dorothee Childssoftware14 Sep 20261,22186
affylmGUI
GUI for limma Package with Affymetrix MicroarraysGordon Smyth		Gordon Smythsoftware28 Apr 20261,19455
qcmetrics
A Framework for Quality ControlLaurent Gatto		Laurent Gattosoftware28 Apr 20261,19020
SplicingGraphs
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to themH. Pagès		H. Pagèssoftware28 Apr 20261,16279
mosaics
MOSAiCS (MOdel-based one and two Sample Analysis and Inference for ChIP-Seq)Dongjun Chung		Dongjun Chungsoftware28 Apr 20261,14645
InPAS
Identify Novel Alternative PolyAdenylation Sites (PAS) from RNA-seq dataJianhong Ou		Jianhong Ousoftware28 Apr 20261,145143
isobar
Analysis and quantitation of isobarically tagged MSMS proteomics dataFlorian P Breitwieser		Florian P Breitwiesersoftware28 Apr 20261,14378
rTRM
Identification of Transcriptional Regulatory Modules from Protein-Protein Interaction NetworksDiego Diez		Diego Diezsoftware28 Apr 20261,11747
RMassBank
Workflow to process tandem MS files and build MassBank recordsRMassBank at Eawag		RMassBank at Eawagsoftware28 Apr 20261,116175