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Package Name Access Summary Updated
bioconductor-coverageview public Coverage visualization package for R 2024-12-26
bioconductor-metagene2 public A package to produce metagene plots 2024-12-26
bioconductor-syntenet public Inference And Analysis Of Synteny Networks 2024-12-26
bioconductor-past public Pathway Association Study Tool (PAST) 2024-12-26
bioconductor-gseabenchmarker public Reproducible GSEA Benchmarking 2024-12-26
r-geneexpressionfromgeo public A function that reads in the GEO code of a gene expression dataset, retrieves its data from GEO, (optionally) retrieves the gene symbols of the dataset, and returns a simple dataframe table containing all the data. Platforms available: GPL11532, GPL23126, GPL6244, GPL8300, GPL80, GPL96, GPL570, GPL571, GPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884, GPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL <https://ftp.ncbi.nlm.nih.gov/geo/series/>. More information can be found in the following manuscript: Davide Chicco, "geneExpressionFromGEO: an R package to facilitate data reading from Gene Expression Omnibus (GEO)". Microarray Data Analysis, Methods in Molecular Biology, volume 2401, chapter 12, pages 187-194, Springer Protocols, 2021, <doi:10.1007/978-1-0716-1839-4_12>. 2024-12-26
bioconductor-rarr public Read Zarr Files in R 2024-12-26
bioconductor-enrichmentbrowser public Seamless navigation through combined results of set-based and network-based enrichment analysis 2024-12-26
bioconductor-tigre public Transcription factor Inference through Gaussian process Reconstruction of Expression 2024-12-26
bioconductor-gseabase public Gene set enrichment data structures and methods 2024-12-26
bioconductor-preda public Position Related Data Analysis 2024-12-26
bioconductor-globaltest public Testing Groups of Covariates/Features for Association with a Response Variable, with Applications to Gene Set Testing 2024-12-26
bioconductor-codelink public Manipulation of Codelink microarray data 2024-12-26
bioconductor-mgfm public Marker Gene Finder in Microarray gene expression data 2024-12-26
bioconductor-semdist public Information Accretion-based Function Predictor Evaluation 2024-12-26
bioconductor-idiogram public idiogram 2024-12-26
vamb public Variational autoencoder for metagenomic binning 2024-12-26
bioconductor-ssnappy public Single Sample directioNAl Pathway Perturbation analYsis 2024-12-26
bioconductor-mirnameconverter public Convert miRNA Names to Different miRBase Versions 2024-12-26
bioconductor-ragene10sttranscriptcluster.db public Affymetrix ragene10 annotation data (chip ragene10sttranscriptcluster) 2024-12-26
bioconductor-rgu34c.db public Affymetrix Affymetrix RG_U34C Array annotation data (chip rgu34c) 2024-12-26
bioconductor-raex10stprobeset.db public Affymetrix raex10 annotation data (chip raex10stprobeset) 2024-12-26
bioconductor-ragene10stprobeset.db public Affymetrix ragene10 annotation data (chip ragene10stprobeset) 2024-12-26
bioconductor-ragene20stprobeset.db public Affymetrix ragene20 annotation data (chip ragene20stprobeset) 2024-12-26
bioconductor-ragene21sttranscriptcluster.db public Affymetrix ragene21 annotation data (chip ragene21sttranscriptcluster) 2024-12-26
bioconductor-lumiratall.db public Illumina Rat Illumina expression annotation data (chip lumiRatAll) assembled using data from public repositories 2024-12-26
bioconductor-clariomsrattranscriptcluster.db public Affymetrix clariomsrat annotation data (chip clariomsrattranscriptcluster) 2024-12-26
bioconductor-rwgcod.db public Codelink Rat Whole Genome Bioarray (~34 000 rat gene targets) annotation data (chip rwgcod) assembled using data from public repositories 2024-12-26
bioconductor-rgu34a.db public Affymetrix Affymetrix RG_U34A Array annotation data (chip rgu34a) 2024-12-26
bioconductor-rguatlas4k.db public Clontech BD Atlas Long Oligos Rat 4K annotation data (chip rguatlas4k) assembled using data from public repositories 2024-12-26
bioconductor-rgug4131a.db public Agilent "Rat Genome, Whole" annotation data (chip rgug4131a) assembled using data from public repositories 2024-12-26
bioconductor-rta10probeset.db public Affymetrix rta10 annotation data (chip rta10probeset) 2024-12-26
bioconductor-adme16cod.db public Codelink ADME Rat 16-Assay Bioarray annotation data (chip adme16cod) assembled using data from public repositories 2024-12-26
bioconductor-rgu34b.db public Affymetrix Affymetrix RG_U34B Array annotation data (chip rgu34b) 2024-12-26
bioconductor-ragene11sttranscriptcluster.db public Affymetrix ragene11 annotation data (chip ragene11sttranscriptcluster) 2024-12-26
bioconductor-illuminaratv1.db public Illumina Ratv1 annotation data (chip illuminaRatv1) assembled using data from public repositories 2024-12-26
bioconductor-rae230a.db public Affymetrix Affymetrix RAE230A Array annotation data (chip rae230a) 2024-12-26
bioconductor-rgug4130a.db public Agilent Rat annotation data (chip rgug4130a) assembled using data from public repositories 2024-12-26
bioconductor-clariomsrathttranscriptcluster.db public Affymetrix clariomsratht annotation data (chip clariomsrathttranscriptcluster) 2024-12-26
bioconductor-rae230b.db public Affymetrix Affymetrix RAE230B Array annotation data (chip rae230b) 2024-12-26
bioconductor-rnu34.db public Affymetrix Affymetrix RN_U34 Array annotation data (chip rnu34) 2024-12-26
bioconductor-rta10transcriptcluster.db public Affymetrix rta10 annotation data (chip rta10transcriptcluster) 2024-12-26
bioconductor-htratfocus.db public Affymetrix Affymetrix HT_Rat-Focus Array annotation data (chip htratfocus) 2024-12-26
bioconductor-rtu34.db public Affymetrix Affymetrix RT_U34 Array annotation data (chip rtu34) 2024-12-26
bioconductor-raex10sttranscriptcluster.db public Affymetrix raex10 annotation data (chip raex10sttranscriptcluster) 2024-12-26
bioconductor-rnagilentdesign028282.db public Agilent Chips that use Agilent design number 028282 annotation data (chip RnAgilentDesign028282) assembled using data from public repositories 2024-12-26
bioconductor-ragene11stprobeset.db public Affymetrix ragene11 annotation data (chip ragene11stprobeset) 2024-12-26
r-acidgsea public Parameterized fast gene set enrichment analysis. 2024-12-26
bioconductor-htrat230pm.db public Affymetrix Affymetrix HT_Rat230_PM Array annotation data (chip htrat230pm) 2024-12-26
bioconductor-rat2302.db public Affymetrix Affymetrix Rat230_2 Array annotation data (chip rat2302) 2024-12-26
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