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Topic: SingleCell or Proteomics or oligo

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Release: Release 2.13 (2013)

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216 packages on Bioconductor tagged SingleCell or Proteomics or oligo, most distinct IPs first

SingleCell, Proteomics and oligo 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
pathview
a tool set for pathway based data integration and visualizationWeijun Luo		Weijun Luosoftware28 Apr 20265,70650
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
mzID
An mzIdentML parser for RLaurent Gatto		Laurent Gattosoftware28 Apr 20264,53211
MassSpecWavelet
Peak Detection for Mass Spectrometry data using wavelet-based algorithmsSergio Oller Moreno		Sergio Oller Morenosoftware7 Jul 20263,0960
Rsubread
Mapping, quantification and variant analysis of sequencing dataWei Shi		Wei Shisoftware28 Apr 20262,9518
ChemmineR
Cheminformatics Toolkit for RThomas Girke		Thomas Girkesoftware28 Apr 20261,85465
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
hpar
Human Protein Atlas in RLaurent Gatto		Laurent Gattosoftware28 Apr 20261,38264
qcmetrics
A Framework for Quality ControlLaurent Gatto		Laurent Gattosoftware28 Apr 20261,19020
isobar
Analysis and quantitation of isobarically tagged MSMS proteomics dataFlorian P Breitwieser		Florian P Breitwiesersoftware28 Apr 20261,14378
RankProd
Rank Product method for identifying differentially expressed genes with application in meta-analysisFrancesco Del Carratore		Francesco Del Carratoresoftware28 Apr 20261,1426
fmcsR
Mismatch Tolerant Maximum Common Substructure SearchingThomas Girke		Thomas Girkesoftware28 Apr 20261,08768
plgem
Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM)Norman Pavelka		Norman Pavelkasoftware28 Apr 20261,0479
ChemmineOB
R interface to a subset of OpenBabel functionalitiesThomas Girke		Thomas Girkesoftware28 Apr 20261,0478
CellNOptR
Training of boolean logic models of signalling networks using prior knowledge networks and perturbation dataAttila Gabor		Attila Gaborsoftware28 Apr 20261,04462
cleaver
Cleavage of Polypeptide SequencesSebastian Gibb		Sebastian Gibbsoftware28 Apr 20261,03815
BRAIN
Baffling Recursive Algorithm for Isotope distributioN calculationsPiotr Dittwald		Piotr Dittwaldsoftware28 Apr 20261,01419
procoil
Prediction of Oligomerization of Coiled Coil ProteinsUlrich Bodenhofer		Ulrich Bodenhofersoftware28 Apr 20261,00626
CNORfeeder
Integration of CellNOptR to add missing linksAttila Gabor		Attila Gaborsoftware28 Apr 202694563
clippda
A package for the clinical proteomic profiling data analysisStephen Nyangoma		Stephen Nyangomasoftware28 Apr 202693242
msmsTests
LC-MS/MS Differential Expression TestsJosep Gregori i Font		Josep Gregori i Fontsoftware28 Apr 2026931145
PROcess
Ciphergen SELDI-TOF ProcessingXiaochun Li		Xiaochun Lisoftware28 Apr 202689311
msmsEDA
Exploratory Data Analysis of LC-MS/MS data by spectral countsJosep Gregori		Josep Gregorisoftware28 Apr 2026888140
bioassayR
Cross-target analysis of small molecule bioactivityThomas Girke		Thomas Girkesoftware28 Apr 202684474
PLPE
Local Pooled Error Test for Differential Expression with Paired High-throughput DataSoo-heang Eo		Soo-heang Eosoftware28 Apr 202682310
customProDB
Generate customized protein database from NGS data, with a focus on RNA-Seq data, for proteomics searchXiaojing Wang		Xiaojing Wangsoftware13 Jan 2026819103