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Topic: SingleCell or Alignment or MassSpectrometry

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Release: Release 2.13 (2013)

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41 packages on Bioconductor tagged SingleCell or Alignment or MassSpectrometry, most distinct IPs first

SingleCell, Alignment and MassSpectrometry in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
Biostrings
Efficient manipulation of biological stringsHervé Pagès		Hervé Pagèssoftware2 Sep 202658,96214
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
Rsamtools
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file importBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202630,33728
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
DECIPHER
Tools for curating, analyzing, and manipulating biological sequencesErik Wright		Erik Wrightsoftware30 Jul 20264,88216
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
Rsubread
Mapping, quantification and variant analysis of sequencing dataWei Shi		Wei Shisoftware28 Apr 20262,9518
motifStack
Plot stacked logos for single or multiple DNA, RNA and amino acid sequenceJianhong Ou		Jianhong Ousoftware28 Apr 20261,782111
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
QuasR
Quantify and Annotate Short Reads in RMichael Stadler		Michael Stadlersoftware28 Apr 20261,551114
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
rols
An R interface to the Ontology Lookup ServiceSehyun Oh		Sehyun Ohsoftware12 Oct 20261,30422
Rbowtie
R bowtie wrapperMichael Stadler		Michael Stadlersoftware28 Apr 20261,2111
qcmetrics
A Framework for Quality ControlLaurent Gatto		Laurent Gattosoftware28 Apr 20261,19020
segmentSeq
Methods for identifying small RNA loci from high-throughput sequencing dataSamuel Granjeaud		Samuel Granjeaudsoftware28 Apr 20261,17059
isobar
Analysis and quantitation of isobarically tagged MSMS proteomics dataFlorian P Breitwieser		Florian P Breitwiesersoftware28 Apr 20261,14378
RMassBank
Workflow to process tandem MS files and build MassBank recordsRMassBank at Eawag		RMassBank at Eawagsoftware28 Apr 20261,116175
plgem
Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM)Norman Pavelka		Norman Pavelkasoftware28 Apr 20261,0479
BRAIN
Baffling Recursive Algorithm for Isotope distributioN calculationsPiotr Dittwald		Piotr Dittwaldsoftware28 Apr 20261,01419
apComplex
Estimate protein complex membership using AP-MS protein dataDenise Scholtens		Denise Scholtenssoftware28 Apr 20261,00948
gaga
GaGa hierarchical model for high-throughput data analysisDavid Rossell		David Rossellsoftware28 Apr 202695917
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