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News: Single Package Builder / New Package Submission
new package build machines infrastructure News
4.9 years ago shepherl 4.1k
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deseq2 DESeqDataSet size when saved
deseq2 infrastructure deseqdataset importing
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
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News: Bioconductor git transition BETA phase starts now.
git svn infrastructure bioconductor News
7.8 years ago nitesh.turaga ▴ 140
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The bioconductor.org main website will be down for a brief period for maintenance. Starting approximately 7:45 am EST. Should be back up around 8:00 …
infrastructure
8.3 years ago gregory.wargula ▴ 30
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Bioconductor 2.6 is released
Sequencing Microarray Visualization Infrastructure PROcess beadarray keggorthology eisa
updated 8.7 years ago by • 0 • written 15.0 years ago by ★ 1.6k
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News: BioCAsia, 4th November 2016, Brisbane, Australia
conference transcription epigenomics visualization infrastructure News
8.8 years ago Matthew Ritchie ▴ 1000
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News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
9.9 years ago • updated 9.7 years ago Matthew Ritchie ▴ 1000
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Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 11.1 years ago by ★ 1.3k • written 11.1 years ago by ▴ 680
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job: head of core facility bioinformatics (Mainz/Germany)
Epigenetics Infrastructure Epigenetics Infrastructure
11.3 years ago Holger Klein ▴ 20
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Bioinformatics Facility Director Position at UC Riverside
Proteomics Infrastructure Proteomics Infrastructure
11.6 years ago Thomas Girke ★ 1.7k
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Reopening of Computational Biologist position at Genentech
Infrastructure PROcess Infrastructure PROcess
11.7 years ago Michael Lawrence ★ 11k
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*Ranges paper published
Infrastructure IRanges GenomicFeatures GenomicRanges Infrastructure IRanges GenomicFeatures
updated 11.7 years ago by ★ 4.2k • written 11.7 years ago by ★ 11k
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DexSeq extracols option
RNASeq Microarray Genetics Annotation Normalization Infrastructure Cancer probe limma
updated 11.7 years ago by ★ 1.9k • written 11.7 years ago by ▴ 40
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convert IDs in a data frame?
GO Infrastructure Cancer GO Infrastructure Cancer
updated 11.8 years ago by ★ 7.2k • written 11.8 years ago by 16k
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Finding mismatches between reads and reference sequence
Infrastructure Cancer BSgenome BSgenome Infrastructure Cancer BSgenome BSgenome
updated 12.1 years ago by ▴ 30 • written 12.1 years ago by 16k
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Bioconductor Digest, Vol 121, Issue 29
miRNA Annotation Normalization Visualization Clustering Infrastructure Cancer BSgenome vsn
12.1 years ago Matthew Thornton ▴ 380
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[R] Error in setMethod("combine"... was - Error when installing globaltest package
Infrastructure Cancer Biobase tkWidgets globaltest BiocInstaller BiocGenerics Cancer
updated 12.1 years ago by 25k • written 12.1 years ago by ▴ 40
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Job: Bioinformatician (postdoc, indefinite) Pirbright Institute
Infrastructure Infrastructure
12.1 years ago Jan T Kim ▴ 50
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assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
12.1 years ago Julie Zhu ★ 4.3k
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GSEABase error parsing msigdb_v3.1.xml
GO Infrastructure hgu95av2 Biobase annotate graph Category AnnotationDbi BiocGenerics GO
updated 12.2 years ago by 25k • written 12.2 years ago by ▴ 80
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Open computational biologist position at Genentech
Infrastructure Infrastructure
12.3 years ago Michael Lawrence ★ 11k
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Bioinformatics Position Opening
Proteomics Infrastructure Proteomics Infrastructure
12.3 years ago Thomas Girke ★ 1.7k
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Bioinformatician Job at Pirbright Institute
Genetics Infrastructure Genetics Infrastructure
12.4 years ago Jan T Kim ▴ 50
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pooling for parallel hierarchical operations
Infrastructure Infrastructure
updated 12.4 years ago by 25k • written 12.5 years ago by ★ 11k
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counting RNA-seq reads in R/BioC
GO Infrastructure Rsubread easyRNASeq GO Infrastructure Rsubread easyRNASeq
updated 12.6 years ago by ★ 6.8k • written 12.6 years ago by ▴ 880
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good news and bad news
Infrastructure Cancer IRanges GenomicRanges Infrastructure Cancer IRanges GenomicRanges
updated 12.7 years ago by ★ 13k • written 12.7 years ago by 16k
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Bioinformatics Academic Coordinator Job Posting
Proteomics Infrastructure Proteomics Infrastructure
12.8 years ago Guest User ★ 13k
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2012 Bioconductor European Developers' Workshop - annoucement
Proteomics Infrastructure Proteomics Infrastructure
12.9 years ago Mark Robinson ▴ 880
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Open Position - Academic Coordinator for Bioinformatics
Proteomics Infrastructure Proteomics Infrastructure
13.1 years ago Thomas Girke ★ 1.7k
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2 more Job Announcements
Genetics Infrastructure Genetics Infrastructure
13.1 years ago Jenny Drnevich ★ 2.0k
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[Job] Bioinformatician-NGS (Vienna, Austria)
Sequencing Infrastructure Sequencing Infrastructure
13.4 years ago Ido M. Tamir ▴ 150
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"internal equal" overlap mode for GRangesList
Infrastructure Infrastructure
updated 13.5 years ago by ★ 1.6k • written 13.5 years ago by ★ 11k
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illuminaHumanv4 mappings
Infrastructure Cancer Homo sapiens probe AnnotationDbi ASSIGN Infrastructure Cancer probe
13.6 years ago Mark Cowley ▴ 910
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GGtools and GGBase installation problems
Infrastructure GUI Ruuid GGtools GGBase Infrastructure GUI Ruuid GGtools GGBase
updated 14.2 years ago by 6.7k • written 14.2 years ago by ▴ 460
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A code kata: evening-out *Ranges ends.
Infrastructure Cancer IRanges Infrastructure Cancer IRanges
14.7 years ago Steve Lianoglou ★ 13k
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NOTE: bioconductor.org system maintenance; planned downtime 12pm-1pm PDT Friday 9/18
Infrastructure Infrastructure
15.6 years ago Patrick Aboyoun ★ 1.6k
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Research positions available in neuroproteomics
Proteomics Infrastructure Proteomics Infrastructure
16.1 years ago Abhilash Venu ▴ 340
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GSEA to discover co-regulated genes
Transcription Annotation Pathways Infrastructure probe convert GSEABase Transcription
16.2 years ago Paul Geeleher ★ 1.3k
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Project Enquiry!
Infrastructure Infrastructure
16.7 years ago Kat ▴ 20
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Staff Position at EBI: Computational Scientist / Bioconductor
Infrastructure Infrastructure
16.7 years ago Wolfgang Huber ★ 13k
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GSEABase error in parsing msigdb_v2.5.xml
GO Infrastructure hgu95av2 Biobase Ruuid AnnotationDbi GO Infrastructure hgu95av2 Biobase
updated 17.0 years ago by 25k • written 17.0 years ago by ▴ 130
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Affymetrix Human Gene 1.0 ST Array
Infrastructure cdf probe affy Infrastructure cdf probe affy
17.0 years ago Hans-Ulrich Klein ▴ 330
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BioC 2.2 now available
SNP Microarray Genetics Annotation Preprocessing Bayesian Clustering Infrastructure Cancer
updated 17.0 years ago by ★ 1.6k • written 17.0 years ago by 25k
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To biomaRt users: Major downtime March 7th 4pm - March 8th 6pm
Infrastructure biomaRt Infrastructure biomaRt
17.1 years ago Steffen ▴ 500
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biocep project - R for the Web and the Virtual R Workbench
Infrastructure PROcess Infrastructure PROcess
17.4 years ago kchine@ebi.ac.uk ▴ 10
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question regarding lumiHumanV1SUMFUNC and lumiRatV1SUMFUNC in lumiHumanV1 and lumiRatV1, respectively
Annotation Infrastructure Cancer Annotation Infrastructure Cancer
17.7 years ago Seth Falcon ★ 7.4k
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2x2 factorial with dye effect, limma design
Microarray Infrastructure Microarray Infrastructure
18.3 years ago Gordon Smyth 52k
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BioC 1.9 is released!
BiocViews SNP Microarray Annotation Normalization Visualization Network Infrastructure SNP
18.6 years ago Seth Falcon ★ 7.4k
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1.3k
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Newbie 'rflowcyt' question; problem loading facscan256.fcs
Survival Infrastructure Cancer hexbin prada rfcdmin rflowcyt Survival Infrastructure
updated 18.9 years ago by ★ 7.4k • written 18.9 years ago by ▴ 80
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extracting interactions between members of the KEGG pathways
Pathways Infrastructure Cancer graph Pathways Infrastructure Cancer graph
updated 19.1 years ago by ★ 5.5k • written 19.1 years ago by ▴ 90
50 results • Page 1 of 1
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Comment: CluserProfiler message "No gene can be mapped" by Carolina • 0
There is, the overlap that reads out is ( Genes in common: 368 of 368 ). Here is the link for [background genes][1], [term2gene][2], [term2…
Comment: Differing results with DESeq2 by JKim • 0
My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…
Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k
This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…
Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80
Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…
Votes
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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