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News: Single Package Builder / New Package Submission
new package build machines infrastructure News
4.7 years ago shepherl 4.1k
1
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deseq2 DESeqDataSet size when saved
deseq2 infrastructure deseqdataset importing
updated 6.4 years ago by 43k • written 6.4 years ago by • 0
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News: Bioconductor git transition BETA phase starts now.
git svn infrastructure bioconductor News
7.6 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
8.1 years ago gregory.wargula ▴ 30
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Bioconductor 2.6 is released
Sequencing Microarray Visualization Infrastructure PROcess beadarray keggorthology eisa
updated 8.5 years ago by • 0 • written 14.8 years ago by ★ 1.6k
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News: BioCAsia, 4th November 2016, Brisbane, Australia
conference transcription epigenomics visualization infrastructure News
8.6 years ago Matthew Ritchie ▴ 1000
3
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News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
9.7 years ago • updated 9.5 years ago Matthew Ritchie ▴ 1000
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5
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Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 10.9 years ago by ★ 1.3k • written 10.9 years ago by ▴ 680
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job: head of core facility bioinformatics (Mainz/Germany)
Epigenetics Infrastructure Epigenetics Infrastructure
11.1 years ago Holger Klein ▴ 20
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Bioinformatics Facility Director Position at UC Riverside
Proteomics Infrastructure Proteomics Infrastructure
11.4 years ago Thomas Girke ★ 1.7k
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1.3k
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Reopening of Computational Biologist position at Genentech
Infrastructure PROcess Infrastructure PROcess
11.5 years ago Michael Lawrence ★ 11k
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1.3k
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*Ranges paper published
Infrastructure IRanges GenomicFeatures GenomicRanges Infrastructure IRanges GenomicFeatures
updated 11.5 years ago by ★ 4.2k • written 11.6 years ago by ★ 11k
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DexSeq extracols option
RNASeq Microarray Genetics Annotation Normalization Infrastructure Cancer probe limma
updated 11.6 years ago by ★ 1.9k • written 11.6 years ago by ▴ 40
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convert IDs in a data frame?
GO Infrastructure Cancer GO Infrastructure Cancer
updated 11.6 years ago by ★ 7.2k • written 11.6 years ago by 16k
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Finding mismatches between reads and reference sequence
Infrastructure Cancer BSgenome BSgenome Infrastructure Cancer BSgenome BSgenome
updated 11.9 years ago by ▴ 30 • written 11.9 years ago by 16k
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Bioconductor Digest, Vol 121, Issue 29
miRNA Annotation Normalization Visualization Clustering Infrastructure Cancer BSgenome vsn
11.9 years ago Matthew Thornton ▴ 380
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2
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2.8k
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[R] Error in setMethod("combine"... was - Error when installing globaltest package
Infrastructure Cancer Biobase tkWidgets globaltest BiocInstaller BiocGenerics Cancer
updated 11.9 years ago by 25k • written 11.9 years ago by ▴ 40
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Job: Bioinformatician (postdoc, indefinite) Pirbright Institute
Infrastructure Infrastructure
11.9 years ago Jan T Kim ▴ 50
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2.8k
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assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
12.0 years ago • updated 11.9 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 12.1 years ago by 25k • written 12.1 years ago by ▴ 80
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Open computational biologist position at Genentech
Infrastructure Infrastructure
12.1 years ago Michael Lawrence ★ 11k
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1.3k
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Bioinformatics Position Opening
Proteomics Infrastructure Proteomics Infrastructure
12.1 years ago Thomas Girke ★ 1.7k
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1.8k
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Bioinformatician Job at Pirbright Institute
Genetics Infrastructure Genetics Infrastructure
12.2 years ago Jan T Kim ▴ 50
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5
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1.3k
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pooling for parallel hierarchical operations
Infrastructure Infrastructure
updated 12.3 years ago by 25k • written 12.3 years ago by ★ 11k
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2
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counting RNA-seq reads in R/BioC
GO Infrastructure Rsubread easyRNASeq GO Infrastructure Rsubread easyRNASeq
updated 12.5 years ago by ★ 6.8k • written 12.5 years ago by ▴ 880
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good news and bad news
Infrastructure Cancer IRanges GenomicRanges Infrastructure Cancer IRanges GenomicRanges
updated 12.5 years ago by ★ 13k • written 12.5 years ago by 16k
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Bioinformatics Academic Coordinator Job Posting
Proteomics Infrastructure Proteomics Infrastructure
12.6 years ago Guest User ★ 13k
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2012 Bioconductor European Developers' Workshop - annoucement
Proteomics Infrastructure Proteomics Infrastructure
12.7 years ago Mark Robinson ▴ 880
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Open Position - Academic Coordinator for Bioinformatics
Proteomics Infrastructure Proteomics Infrastructure
12.9 years ago Thomas Girke ★ 1.7k
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2 more Job Announcements
Genetics Infrastructure Genetics Infrastructure
13.0 years ago Jenny Drnevich ★ 2.0k
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[Job] Bioinformatician-NGS (Vienna, Austria)
Sequencing Infrastructure Sequencing Infrastructure
13.2 years ago Ido M. Tamir ▴ 150
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"internal equal" overlap mode for GRangesList
Infrastructure Infrastructure
updated 13.3 years ago by ★ 1.6k • written 13.3 years ago by ★ 11k
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illuminaHumanv4 mappings
Infrastructure Cancer Homo sapiens probe AnnotationDbi ASSIGN Infrastructure Cancer probe
13.4 years ago Mark Cowley ▴ 910
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1.7k
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GGtools and GGBase installation problems
Infrastructure GUI Ruuid GGtools GGBase Infrastructure GUI Ruuid GGtools GGBase
updated 14.0 years ago by 6.7k • written 14.0 years ago by ▴ 460
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5
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1.5k
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A code kata: evening-out *Ranges ends.
Infrastructure Cancer IRanges Infrastructure Cancer IRanges
14.5 years ago Steve Lianoglou ★ 13k
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947
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NOTE: bioconductor.org system maintenance; planned downtime 12pm-1pm PDT Friday 9/18
Infrastructure Infrastructure
15.4 years ago Patrick Aboyoun ★ 1.6k
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Research positions available in neuroproteomics
Proteomics Infrastructure Proteomics Infrastructure
16.0 years ago Abhilash Venu ▴ 340
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1.5k
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GSEA to discover co-regulated genes
Transcription Annotation Pathways Infrastructure probe convert GSEABase Transcription
16.1 years ago Paul Geeleher ★ 1.3k
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987
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Project Enquiry!
Infrastructure Infrastructure
16.5 years ago Kat ▴ 20
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1.0k
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Staff Position at EBI: Computational Scientist / Bioconductor
Infrastructure Infrastructure
16.5 years ago Wolfgang Huber ★ 13k
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1
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1.6k
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GSEABase error in parsing msigdb_v2.5.xml
GO Infrastructure hgu95av2 Biobase Ruuid AnnotationDbi GO Infrastructure hgu95av2 Biobase
updated 16.8 years ago by 25k • written 16.8 years ago by ▴ 130
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5.2k
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Affymetrix Human Gene 1.0 ST Array
Infrastructure cdf probe affy Infrastructure cdf probe affy
16.8 years ago Hans-Ulrich Klein ▴ 330
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1
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1.5k
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BioC 2.2 now available
SNP Microarray Genetics Annotation Preprocessing Bayesian Clustering Infrastructure Cancer
updated 16.8 years ago by ★ 1.6k • written 16.8 years ago by 25k
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To biomaRt users: Major downtime March 7th 4pm - March 8th 6pm
Infrastructure biomaRt Infrastructure biomaRt
17.0 years ago Steffen ▴ 500
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1.3k
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biocep project - R for the Web and the Virtual R Workbench
Infrastructure PROcess Infrastructure PROcess
17.3 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
17.5 years ago Seth Falcon ★ 7.4k
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2x2 factorial with dye effect, limma design
Microarray Infrastructure Microarray Infrastructure
18.1 years ago Gordon Smyth 52k
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1.4k
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BioC 1.9 is released!
BiocViews SNP Microarray Annotation Normalization Visualization Network Infrastructure SNP
18.4 years ago Seth Falcon ★ 7.4k
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1
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1.3k
views
Newbie 'rflowcyt' question; problem loading facscan256.fcs
Survival Infrastructure Cancer hexbin prada rfcdmin rflowcyt Survival Infrastructure
updated 18.7 years ago by ★ 7.4k • written 18.7 years ago by ▴ 80
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5
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extracting interactions between members of the KEGG pathways
Pathways Infrastructure Cancer graph Pathways Infrastructure Cancer graph
updated 19.0 years ago by ★ 5.5k • written 19.0 years ago by ▴ 90
50 results • Page 1 of 1
Recent ...
Replies
Answer: cameraPR() non directional test by Gordon Smyth 52k
Yes, you can still do non-directional tests using cameraPR(), but it's not quite as easy as it was using the original camera() function as …
Answer: WGCNA with paired samples by Ivo • 0
You can use batch correction on the person ID and then continue WGCNA as usual using the corrected matrix. You can use e.g. sva::ComBat or …
Answer: Plot title for PCA in DESeq2 by ATpoint ★ 4.7k
The function uses ggplot2, so you need `+ ggtitle('title')`. Please take a ggplot2 tutorial for details.
Comment: DESeq2 It is correct to use interaction term for patient variability? by Bradley • 0
I apologize, but I am still perplexed. I need to know the exact type of replication. Do we have many samples taken from the same tumor? You…
Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
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