Showing : Network • reset
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WGCNA_ problem in creating scale free topology plot
Network Network
updated 11.5 years ago by 68k • written 11.5 years ago by ▴ 130
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PostDoc opportunity
Pathways Network Pathways Network
11.5 years ago Guest User ★ 13k
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Pathview question
Network convert pathview Network convert pathview
11.6 years ago Luo Weijun ★ 1.6k
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WGCNA package
Network Network
updated 11.7 years ago by ★ 3.0k • written 11.7 years ago by ▴ 130
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IdeogramTrack and bigWig file errors in Gviz
GO Network rtracklayer CAMERA Gviz GO Network rtracklayer CAMERA Gviz
11.7 years ago Robert Ivanek ▴ 750
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tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: width is too small
Network Network
11.9 years ago Paul Shannon ▴ 750
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RCytoscape: tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: width is too small
SystemsBiology Network RCytoscape SystemsBiology Network RCytoscape
11.9 years ago Paul Shannon ▴ 750
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2
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Gene filtering for RNA-seq data
Normalization GO Network HTSFilter DESeq2 Normalization GO Network HTSFilter DESeq2
updated 12.1 years ago by 43k • written 12.1 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 12.1 years ago by ▴ 750 • written 12.1 years ago by ▴ 160
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1.9k
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IdeogramTrack and bigWig file errors in Gviz
ChIPSeq GO Network rtracklayer CAMERA chipseq Gviz ChIPSeq GO Network rtracklayer Gviz
updated 12.2 years ago by ★ 11k • written 12.2 years ago by ▴ 40
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8. CGHCall problems (Bernard North [guest]) : Bioconductor Digest, Vol 126, Issue 7
aCGH RNASeq ChIPSeq Proteomics Annotation Normalization GO Network Cancer ChipName probe
12.3 years ago Sarah JugurnauthLittle ▴ 20
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Error converting SBML to graph Object using R SBML
Network graph convert rsbml Network graph convert rsbml
12.4 years ago Michael Lawrence ★ 11k
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limma for homemade microarray - question on NAs and multiple probes for one gene
Microarray Normalization GO Network Cancer probe limma Microarray Normalization GO probe
updated 12.4 years ago by 53k • written 12.4 years ago by ★ 3.0k
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7
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(no subject)
Network Network
updated 12.6 years ago by 53k • written 12.6 years ago by ▴ 60
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Job opening, KCL Breakthrough Breast Cancer Research Unit
Sequencing Network Cancer Breast Sequencing Network Cancer Breast
12.6 years ago Lawler, Katherine ▴ 40
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2
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1.7k
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IdeogramTrack and bigWig file errors in Gviz
Network rtracklayer CAMERA Gviz Network rtracklayer CAMERA Gviz
12.6 years ago Michael Lawrence ★ 11k
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664
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Problem in Gap Filling in Metabolic networks
Network Network
12.7 years ago Ahmad ▴ 20
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1.4k
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5000 nodes RCytoscape
Network graph Network graph
12.7 years ago Paul Shannon ▴ 750
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10
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3.2k
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assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
12.8 years ago • updated 12.7 years ago Julie Zhu ★ 4.3k
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MCS & ChemineR
Network Clustering PROcess ChemmineR Network Clustering PROcess ChemmineR
12.8 years ago Thomas Girke ★ 1.7k
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Visualization of metabolic network in lpSolve format
Network Network
12.8 years ago Denis Kazakiewicz ▴ 70
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1.3k
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Unable to
Network Network
updated 12.8 years ago by ★ 8.2k • written 12.8 years ago by ★ 13k
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Introductory workshop for RNA-seq 27-28 March 2013, Torino, Italy
Network oneChannelGUI Network oneChannelGUI
12.8 years ago raffaele calogero ▴ 500
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2.4k
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emacs org mode html export using jQuery DataTables (WAS: new package for generating interactive HTML reports)
Network limma GOstats GSEAlm edgeR ReportingTools Network limma GOstats GSEAlm edgeR
12.9 years ago Malcolm Cook ★ 1.6k
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new package for generating interactive HTML reports
Network limma GOstats GSEAlm edgeR ReportingTools Network limma GOstats GSEAlm edgeR
updated 12.9 years ago by ★ 1.6k • written 12.9 years ago by ▴ 20
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924
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Stay in touch with me through LinkedIn
Network Network
12.9 years ago Shreyartha Mukherjee ▴ 80
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956
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Computer for the analysis of high-throughput genomic data
Sequencing Microarray GO Network Cancer Sequencing Microarray GO Network Cancer
12.9 years ago Steve Lianoglou ★ 13k
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RCytoscape on Windows
Network charm RCytoscape Network charm RCytoscape
13.0 years ago Paul Shannon ▴ 750
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[Geneanswers] About the meaning of colours in networks
Network GeneAnswers Network GeneAnswers
13.1 years ago Enrico Ferrero ▴ 10
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1.1k
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Connect with me on LinkedIn
Network Network
13.1 years ago gabriel teku ▴ 80
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ComBat
Transcription Genetics Pathways Network Survival Cancer Breast Colon Kidney Leukemia HIV
13.1 years ago SSc Array Core ▴ 10
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771
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GeneNetworkBuilder package
Network Network
13.2 years ago Julie Zhu ★ 4.3k
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1.4k
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rna-seq
Microarray Pathways Network goseq Microarray Pathways Network goseq
updated 13.2 years ago by ▴ 350 • written 13.2 years ago by ★ 13k
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help with biomaRt bioconductor - Filter upstream_flank NOT FOUND problem
Network biomaRt Network biomaRt
13.2 years ago Stefan Kroeger ▴ 10
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BioPAX parsing
Pathways Network Rgraphviz rBiopaxParser Pathways Network Rgraphviz rBiopaxParser
13.2 years ago Frank Kramer ▴ 10
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2.1k
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GeneAnswer package Query
Network graph Network graph
updated 13.3 years ago by ▴ 300 • written 13.3 years ago by ▴ 570
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Fwd: ASSIST on contrast matrix
Network Homo sapiens limma PROcess Network Homo sapiens limma PROcess
13.3 years ago Seyed Ahmad Mousavi ▴ 10
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635
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Variability in microarray data
Microarray GO Network Microarray GO Network
13.3 years ago Guest User ★ 13k
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4 Positions at EMBL
Sequencing Network Sequencing Network
13.3 years ago Wolfgang Huber ★ 13k
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1.0k
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Registration is now open for COMBINE 2012. Aug.15-19 in Toronto, Canada
Network Network
13.4 years ago Robin Haw ▴ 50
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1.1k
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BioPAX parsing
Pathways Visualization Network graph Pathways Visualization Network graph
13.4 years ago Oliver Ruebenacker ▴ 110
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1.3k
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nem package, nem.BN learning with 'continuous_Baysian' not possible
Network Bayesian nem Network Bayesian nem
13.4 years ago Siebourg Juliane ▴ 10
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1.0k
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2012 Systems Bioinformatics Workshop
SAGE Visualization Network SAGE Visualization Network
13.5 years ago Christopher Bare ▴ 10
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3
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2.9k
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WGCNA chooseTopHubInEachModule function
Network Network
13.5 years ago Sudeep Sahadevan ▴ 20
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968
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BioPAX/SBPAX import for MicroArray Analysis and Hypothesis Building
Microarray Network Microarray Network
13.5 years ago Oliver Ruebenacker ▴ 110
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1
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999
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BioPAX/SBPAX import for MicroArray Analysis and Hypothesis Building
Microarray Pathways Network Microarray Pathways Network
updated 13.5 years ago by ★ 4.2k • written 13.5 years ago by ▴ 110
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1.2k
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DESeq Package Questions
Network edgeR DESeq Network edgeR DESeq
13.6 years ago Xin Davis ▴ 30
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1
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1.7k
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FW: Overlay Gene Expression on SNP (copy number) data
SNP Coverage Network Cancer TranscriptDb IRanges RCytoscape ggbio Gviz SNP Coverage
updated 13.6 years ago by ★ 4.2k • written 13.6 years ago by ▴ 370
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1.5k
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Bioconductor 2.10 is released
Transcription Sequencing Microarray Annotation Normalization Visualization Network Bayesian
13.7 years ago Dan Tenenbaum ★ 8.2k
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5
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4.1k
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Adjacency to network using R
Visualization Network convert Visualization Network convert
updated 13.7 years ago by ★ 4.2k • written 13.7 years ago by ▴ 120
180 results • Page 2 of 4
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Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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