Packages

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

Package	Maintainer	Category	Latest version	Distinct IPs a month	Needs
limma Linear Models for Microarray and Omics DataGordon Smyth	Gordon Smyth	software	10 Aug 2026	45,965	6
edgeR Empirical Analysis of Digital Gene Expression Data in RYunshun Chen	Yunshun Chen	software	19 Oct 2026	32,392	10
MassSpecWavelet Peak Detection for Mass Spectrometry data using wavelet-based algorithmsSergio Oller Moreno	Sergio Oller Moreno	software	7 Jul 2026	3,096	0
ChemmineR Cheminformatics Toolkit for RThomas Girke	Thomas Girke	software	28 Apr 2026	1,854	65
RankProd Rank Product method for identifying differentially expressed genes with application in meta-analysisFrancesco Del Carratore	Francesco Del Carratore	software	28 Apr 2026	1,142	6
plgem Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM)Norman Pavelka	Norman Pavelka	software	28 Apr 2026	1,047	9
clippda A package for the clinical proteomic profiling data analysisStephen Nyangoma	Stephen Nyangoma	software	28 Apr 2026	932	42
PROcess Ciphergen SELDI-TOF ProcessingXiaochun Li	Xiaochun Li	software	28 Apr 2026	893	11
PLPE Local Pooled Error Test for Differential Expression with Paired High-throughput DataSoo-heang Eo	Soo-heang Eo	software	28 Apr 2026	823	10
SLGI Synthetic Lethal Genetic Interaction			no date on record	626
RpsiXML R interface to PSI-MI 2.5 files			no date on record	621
ScISI In Silico Interactome			no date on record	572
ppiStats Protein-Protein Interaction Statistical Package			no date on record	540
PCpheno Phenotypes and cellular organizational units			no date on record	485
LPEadj A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size.			no date on record	432
PAnnBuilder Protein annotation data package builder			no date on record	254