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10
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assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
11.1 years ago Julie Zhu ★ 4.3k
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8
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2.0k
views
good news and bad news
Infrastructure Cancer IRanges GenomicRanges Infrastructure Cancer IRanges GenomicRanges
updated 11.7 years ago by ★ 13k • written 11.7 years ago by 16k
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7
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2.2k
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Bioconductor 2.6 is released
Sequencing Microarray Visualization Infrastructure PROcess beadarray keggorthology eisa
updated 7.7 years ago by • 0 • written 14.0 years ago by ★ 1.6k
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5
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3.4k
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Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 10.1 years ago by ★ 1.3k • written 10.1 years ago by ▴ 660
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5
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1.7k
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extracting interactions between members of the KEGG pathways
Pathways Infrastructure Cancer graph Pathways Infrastructure Cancer graph
updated 18.1 years ago by ★ 5.5k • written 18.1 years ago by ▴ 90
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5
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1.3k
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A code kata: evening-out *Ranges ends.
Infrastructure Cancer IRanges Infrastructure Cancer IRanges
13.7 years ago Steve Lianoglou ★ 13k
0
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5
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4.6k
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Finding mismatches between reads and reference sequence
Infrastructure Cancer BSgenome BSgenome Infrastructure Cancer BSgenome BSgenome
updated 11.1 years ago by ▴ 30 • written 11.1 years ago by 16k
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5
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1.1k
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pooling for parallel hierarchical operations
Infrastructure Infrastructure
updated 11.5 years ago by 25k • written 11.5 years ago by ★ 11k
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4
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1.8k
views
DexSeq extracols option
RNASeq Microarray Genetics Annotation Normalization Infrastructure Cancer probe limma
updated 10.8 years ago by ★ 1.9k • written 10.8 years ago by ▴ 40
1
vote
4
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4.7k
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Affymetrix Human Gene 1.0 ST Array
Infrastructure cdf probe affy Infrastructure cdf probe affy
16.0 years ago Hans-Ulrich Klein ▴ 330
1
vote
3
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2.6k
views
deseq2 DESeqDataSet size when saved
deseq2 infrastructure deseqdataset importing
updated 5.6 years ago by 41k • written 5.6 years ago by • 0
0
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2
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974
views
"internal equal" overlap mode for GRangesList
Infrastructure Infrastructure
updated 12.5 years ago by ★ 1.6k • written 12.5 years ago by ★ 11k
0
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2
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2.5k
views
counting RNA-seq reads in R/BioC
GO Infrastructure Rsubread easyRNASeq GO Infrastructure Rsubread easyRNASeq
updated 11.6 years ago by ★ 6.8k • written 11.6 years ago by ▴ 880
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2
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*Ranges paper published
Infrastructure IRanges GenomicFeatures GenomicRanges Infrastructure IRanges GenomicFeatures
updated 10.7 years ago by ★ 4.2k • written 10.7 years ago by ★ 11k
0
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2
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1.6k
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GSEABase error parsing msigdb_v3.1.xml
GO Infrastructure hgu95av2 Biobase annotate graph Category AnnotationDbi BiocGenerics GO
updated 11.3 years ago by 25k • written 11.3 years ago by ▴ 80
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2
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2.6k
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[R] Error in setMethod("combine"... was - Error when installing globaltest package
Infrastructure Cancer Biobase tkWidgets globaltest BiocInstaller BiocGenerics Cancer
updated 11.1 years ago by 25k • written 11.1 years ago by ▴ 40
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
0
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1
reply
970
views
convert IDs in a data frame?
GO Infrastructure Cancer GO Infrastructure Cancer
updated 10.8 years ago by ★ 7.2k • written 10.8 years ago by 16k
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1
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1.3k
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BioC 2.2 now available
SNP Microarray Genetics Annotation Preprocessing Bayesian Clustering Infrastructure Cancer
updated 16.0 years ago by ★ 1.6k • written 16.0 years ago by 25k
0
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1
reply
1.1k
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Newbie 'rflowcyt' question; problem loading facscan256.fcs
Survival Infrastructure Cancer hexbin prada rfcdmin rflowcyt Survival Infrastructure
updated 17.9 years ago by ★ 7.4k • written 17.9 years ago by ▴ 80
0
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1
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1.4k
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GSEABase error in parsing msigdb_v2.5.xml
GO Infrastructure hgu95av2 Biobase Ruuid AnnotationDbi GO Infrastructure hgu95av2 Biobase
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 130
0
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1
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854
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Project Enquiry!
Infrastructure Infrastructure
15.7 years ago Kat ▴ 20
0
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1
reply
803
views
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
7.3 years ago gregory.wargula ▴ 30
4
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2.6k
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News: Bioconductor git transition BETA phase starts now.
git svn infrastructure bioconductor News
6.8 years ago nitesh.turaga ▴ 140
0
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0
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1.2k
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Bioinformatics Position Opening
Proteomics Infrastructure Proteomics Infrastructure
11.3 years ago Thomas Girke ★ 1.7k
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0
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1.3k
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Open computational biologist position at Genentech
Infrastructure Infrastructure
11.3 years ago Michael Lawrence ★ 11k
0
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0
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1.3k
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Job: Bioinformatician (postdoc, indefinite) Pirbright Institute
Infrastructure Infrastructure
11.1 years ago Jan T Kim ▴ 50
0
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0
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1.6k
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Bioconductor Digest, Vol 121, Issue 29
miRNA Annotation Normalization Visualization Clustering Infrastructure Cancer BSgenome vsn
11.1 years ago Matthew Thornton ▴ 350
0
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0
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1.2k
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Reopening of Computational Biologist position at Genentech
Infrastructure PROcess Infrastructure PROcess
10.7 years ago Michael Lawrence ★ 11k
0
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0
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1.4k
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Bioinformatics Facility Director Position at UC Riverside
Proteomics Infrastructure Proteomics Infrastructure
10.6 years ago Thomas Girke ★ 1.7k
3
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0
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1.7k
views
News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
8.9 years ago • updated 8.7 years ago Matthew Ritchie ▴ 1000
1
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0
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1.5k
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News: BioCAsia, 4th November 2016, Brisbane, Australia
conference transcription epigenomics visualization infrastructure News
7.8 years ago Matthew Ritchie ▴ 1000
0
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0
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1.3k
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BioC 1.9 is released!
BiocViews SNP Microarray Annotation Normalization Visualization Network Infrastructure SNP
17.6 years ago Seth Falcon ★ 7.4k
0
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0
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658
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News: Single Package Builder / New Package Submission
new package build machines infrastructure News
3.9 years ago shepherl 3.9k
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0
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1.5k
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Bioinformatics Academic Coordinator Job Posting
Proteomics Infrastructure Proteomics Infrastructure
11.8 years ago Guest User ★ 13k
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0
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1.6k
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Bioinformatician Job at Pirbright Institute
Genetics Infrastructure Genetics Infrastructure
11.4 years ago Jan T Kim ▴ 50
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0
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1.9k
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job: head of core facility bioinformatics (Mainz/Germany)
Epigenetics Infrastructure Epigenetics Infrastructure
10.3 years ago Holger Klein ▴ 20
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0
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665
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[BioCTrain] announcement: training option Boston May 2003
Preprocessing Infrastructure oligo Preprocessing Infrastructure oligo
21.2 years ago Vincent Carey ▴ 10
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0
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1.2k
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S+ArrayAnalyzer and BioConductor Announcement
Microarray SAGE Annotation Infrastructure Microarray SAGE Annotation Infrastructure
19.9 years ago MOConnell@insightful.com ▴ 20
0
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0
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2.2k
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Prestigious Research Fellowship in Biostatistics/Bioinformatics
Microarray Survival Infrastructure Cancer Breast bridge Microarray Survival Infrastructure
19.9 years ago Wei, Wenbin ▴ 50
0
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0
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635
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100K SNP chips for linkage
SNP Microarray Infrastructure Cancer affy SNP Microarray Infrastructure Cancer affy
18.9 years ago James W. MacDonald 65k
0
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0
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931
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Job: Computational Biology Group at FHCRC is hiring
Infrastructure Cancer PROcess Infrastructure Cancer PROcess
18.8 years ago Seth Falcon ★ 7.4k
0
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0
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878
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[OT] Biostatistician position available
Microarray Infrastructure Microarray Infrastructure
18.6 years ago Diego Diez ▴ 760
0
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0
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869
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Cel -> MAGE-ML
Infrastructure affy RMAGEML Infrastructure affy RMAGEML
18.5 years ago Steffen Durinck ▴ 420
0
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0
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1.0k
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2x2 factorial with dye effect, limma design
Microarray Infrastructure Microarray Infrastructure
17.3 years ago Gordon Smyth 50k
0
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0
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621
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question regarding lumiHumanV1SUMFUNC and lumiRatV1SUMFUNC in lumiHumanV1 and lumiRatV1, respectively
Annotation Infrastructure Cancer Annotation Infrastructure Cancer
16.7 years ago Seth Falcon ★ 7.4k
0
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0
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1.2k
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biocep project - R for the Web and the Virtual R Workbench
Infrastructure PROcess Infrastructure PROcess
16.5 years ago kchine@ebi.ac.uk ▴ 10
0
votes
0
replies
829
views
To biomaRt users: Major downtime March 7th 4pm - March 8th 6pm
Infrastructure biomaRt Infrastructure biomaRt
16.2 years ago Steffen ▴ 500
0
votes
0
replies
911
views
Staff Position at EBI: Computational Scientist / Bioconductor
Infrastructure Infrastructure
15.7 years ago Wolfgang Huber ★ 13k
0
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0
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1.3k
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GSEA to discover co-regulated genes
Transcription Annotation Pathways Infrastructure probe convert GSEABase Transcription
15.3 years ago Paul Geeleher ★ 1.3k
50 results • Page 1 of 1
Recent ...
Replies
Comment: Too many significant genes when integrating gtex and tcga by Michael Love 41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Answer: Too many significant genes when integrating gtex and tcga by James W. MacDonald 65k
See `?results`, in particular the lfcThreshold argument.
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Comment: Timecourse RNASeq analysis by Aurora • 0
I managed to run ImpulseDE2 as I am interested in getting significant gene changes over time. Now I would like to run deseq as well and com…
Comment: Once again a "Model matrix not full rank" by arfranco ▴ 130
But.. How to run a temporal assay?
Votes
A: Print Differentially Expressed Exons From Dexseq Results
stuck on unimplemented type 'list' in 'EncodeElement'
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
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