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An ESR essay about software design, and how it applies to Bioconductor
GUI GUI
written 20.2 years ago by ▴ 50
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An ESR essay about software design, and how it applies to Bioconductor
GUI Cancer GUI Cancer
written 20.2 years ago by ▴ 810
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2
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An ESR essay about software design, and how it applies to Bioconductor
GUI GUI
updated 19 months ago by • 0 • written 20.2 years ago by ▴ 30
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News: Plotly uprading issue in ChAMP package
ChAMP Epigenetics plotly Shiny GUI News
7.5 years ago • updated 7.3 years ago Yuan Tian ▴ 90
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2.8k
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CanceR: Survival plots
cancer gui survival Kaplan-Meier
9.1 years ago • updated 9.0 years ago kmezhoud ▴ 10
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1.4k
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CRSIPRseek: no summary file generated
GUI GUI
updated 9.0 years ago by ▴ 40 • written 9.7 years ago by ★ 4.3k
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Error installing impute package
GUI impute DNAcopy GUI impute DNAcopy
updated 9.9 years ago by ★ 8.2k • written 9.9 years ago by ▴ 80
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1.1k
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Error in isVersioned(object)
GUI GUI
updated 10.0 years ago by 25k • written 10.0 years ago by ★ 13k
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8
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3.5k
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Error installing development version of DESeq2
GUI DESeq2 GUI DESeq2
updated 10.3 years ago by ★ 8.2k • written 10.3 years ago by ▴ 220
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limma2annaffy
GO GUI annaffy oligo oligoClasses KEGGREST GO GUI annaffy oligo oligoClasses KEGGREST
updated 10.3 years ago by 65k • written 10.3 years ago by ★ 13k
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How to compare GO term lists and create matching network?
GO Network GUI Organism GO Network GUI Organism
updated 10.5 years ago by ▴ 750 • written 10.5 years ago by ▴ 160
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3
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Error installing (some) Bioconductor packages on Mac OSX under R-3.0.0?
GUI impute DNAcopy GUI impute DNAcopy
updated 11.0 years ago by ★ 8.2k • written 11.0 years ago by ★ 3.0k
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853
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BSgenome.Dmelanogaster.UCSC.dm3 in R 3.0
GUI BSgenome BSgenome GUI BSgenome BSgenome
11.2 years ago Dan Tenenbaum ★ 8.2k
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1.5k
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BSgenome.Dmelanogaster.UCSC.dm3 in R 3.0
GUI GUI
updated 11.2 years ago by ★ 8.2k • written 11.2 years ago by ★ 13k
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3
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Error: package/namespace load failed for ‘affycoretools
GO GUI Cancer GO GUI Cancer
updated 11.3 years ago by ★ 13k • written 11.3 years ago by ★ 2.0k
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3
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1.9k
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Error: 'devel' version requires a more recent R
GUI Cancer easyRNASeq GUI Cancer easyRNASeq
updated 11.4 years ago by 21k • written 11.4 years ago by ★ 2.0k
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sizepower
qPCR GUI qPCR GUI
11.6 years ago Michael Salbaum ▴ 80
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2.0k
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ChipPeakAnno / GRanges isolate peaks that do NOT overlap
GO GUI BSgenome BSgenome GO GUI BSgenome BSgenome
updated 11.7 years ago by ★ 4.3k • written 11.7 years ago by ▴ 110
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4
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2.3k
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Problems installing EBImage - Symbol not found: _gdk_display
GUI convert OLIN EBImage BiocInstaller GUI convert OLIN EBImage BiocInstaller
11.7 years ago Dan Tenenbaum ★ 8.2k
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Problems installing EBImage - Symbol not found: _gdk_display
GUI convert EBImage BiocInstaller GUI convert EBImage BiocInstaller
updated 11.7 years ago by ★ 8.2k • written 11.7 years ago by ▴ 30
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Warnings with running easyRNASeq with easyRNASeq tutorial
RNASeq Annotation GUI Cancer BSgenome BSgenome easyRNASeq RNASeq Annotation GUI Cancer
updated 11.8 years ago by ★ 1.2k • written 11.8 years ago by ★ 2.0k
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How to extract expressed genes from Affymetrix data
GUI GUI
updated 11.8 years ago by ▴ 130 • written 11.8 years ago by ▴ 50
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9
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2.0k
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R IDE editor
GUI GUI
updated 12.0 years ago by ▴ 10 • written 12.0 years ago by ▴ 370
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12
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2.4k
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problem with loading DESeq after upgrading from R 2.14 to R 2.15
GUI DESeq DEXSeq GUI DESeq DEXSeq
updated 12.0 years ago by ▴ 60 • written 12.0 years ago by ▴ 370
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1.1k
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iFlow error messages
GUI iFlow GUI iFlow
12.2 years ago Gabriel Nathan Kaufman, Mr ▴ 60
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1.2k
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Problems normalizing scanarray express data with limma
GUI limma a4 GUI limma a4
updated 12.3 years ago by 50k • written 12.3 years ago by ▴ 10
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1.0k
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question/issue with multtest mt.maxT
Sequencing Microarray GUI Category Sequencing Microarray GUI Category
12.9 years ago Les Dethlefsen ▴ 20
0
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2
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1.5k
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GGtools and GGBase installation problems
Infrastructure GUI Ruuid GGtools GGBase Infrastructure GUI Ruuid GGtools GGBase
updated 13.2 years ago by 6.7k • written 13.2 years ago by ▴ 460
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1.6k
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GGtools and GGBase installation problems
GUI GGtools GGBase GUI GGtools GGBase
updated 13.2 years ago by 6.7k • written 13.2 years ago by ▴ 460
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1.1k
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iFlow and current Bioconductor release
GUI Cancer iFlow GUI Cancer iFlow
13.2 years ago Chao-Jen Wong ▴ 580
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928
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iFlow and current Bioconductor release
GUI iFlow GUI iFlow
13.2 years ago Gabriel Nathan Kaufman, Mr ▴ 60
0
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6
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1.5k
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Unable to Generate QC Report for mogene10stv1
Annotation GO GUI affy PROcess affyQCReport Annotation GO GUI affy PROcess affyQCReport
updated 13.3 years ago by 65k • written 13.3 years ago by ▴ 110
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: [R] Problems wih EBImage for windows 7 --Loading required package: abind Error in library.dynam(lib, package, package.lib) : shared library 'EBImag…
GUI convert EBImage GUI convert EBImage
13.4 years ago Evan Misshula ▴ 80
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1.9k
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biomaRt - attribute mirbase is missing
SNP miRNA GUI biomaRt Vega SNP miRNA GUI biomaRt Vega
updated 13.4 years ago by ▴ 660 • written 13.4 years ago by ▴ 460
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1.2k
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EBImage installs but won't load on Mac OS 10.6.4
GO GUI PROcess convert EBImage GO GUI PROcess convert EBImage
13.4 years ago W. A. Green ▴ 40
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1.2k
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EBImage installs but won't load on Mac OS 10.6.4
GO GUI PROcess convert EBImage GO GUI PROcess convert EBImage
updated 13.4 years ago by ▴ 40 • written 13.4 years ago by ▴ 310
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3.3k
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edgeR: error in readDGE
GUI edgeR GUI edgeR
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 10
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977
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Agi4x44PreProcess - filter.probes function
Annotation GUI zebrafish probe PROcess Annotation GUI zebrafish probe PROcess
13.5 years ago Neel Aluru ▴ 460
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3
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1.3k
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EBImage installs but won't load on Mac OS 10.6.4
GUI PROcess convert EBImage GUI PROcess convert EBImage
updated 13.5 years ago by ▴ 310 • written 13.5 years ago by ▴ 40
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0
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1.1k
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Agi4x44PreProcess
GUI zebrafish probe AgiMicroRna GUI zebrafish probe AgiMicroRna
13.6 years ago Neel Aluru ▴ 460
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5
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2.1k
views
iFlow error in opening FCS and LMD files
GUI iFlow GUI iFlow
updated 13.7 years ago by ▴ 140 • written 13.7 years ago by ▴ 40
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1.1k
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launch of free R/Bioconductor Cloud Computing web-service
GUI GUI
13.7 years ago hbolouri@caltech.edu ▴ 10
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1
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941
views
Rgraphviz in windows 7 - problem with GUI?
GUI graph Rgraphviz GUI graph Rgraphviz
updated 13.8 years ago by 16k • written 13.8 years ago by ▴ 10
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1.2k
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ShortRead report function crash in x86_64-apple
GUI GUI
written 14.0 years ago by ▴ 20
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7
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1.4k
views
rMAT tutorial. Data file too large?
Preprocessing GUI rMAT Preprocessing GUI rMAT
14.0 years ago Patrick Schorderet ▴ 50
0
votes
1
reply
929
views
iFlow error
GUI iFlow GUI iFlow
updated 14.0 years ago by ★ 1.6k • written 14.0 years ago by ▴ 70
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1
reply
1.3k
views
iFlow
GUI GUI
updated 14.0 years ago by ★ 1.6k • written 14.0 years ago by ▴ 70
0
votes
1
reply
883
views
Problems using rMAT tutorial
GUI rMAT GUI rMAT
updated 14.0 years ago by ★ 13k • written 14.0 years ago by ▴ 50
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votes
12
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3.3k
views
problems when trying to use biomaRt
GUI biomaRt GUI biomaRt
updated 14.1 years ago by ★ 2.0k • written 14.1 years ago by ▴ 50
0
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0
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661
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Fwd: problems when trying to use biomaRt
GUI biomaRt GUI biomaRt
14.1 years ago Sean Davis 21k
50 results • Page 1 of 1
Recent ...
Replies
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq by Michael Love 41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide by Gordon Smyth 50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You are just making up data? What is the point of this exercise?
Comment: How to retrieve gene ontology GO class? by James W. MacDonald 65k
What do you mean by 'the information'? Do you have things in particular that you want?
Comment: minfi::read.metharray.exp by clacarion • 0
I think its work with `read.metharray.sheet` ```r > sheet <- read.metharray.sheet("/Users/clarachretienneau/Desktop/clock_epigenetic/PJ120…
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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