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WGCNA_ problem in creating scale free topology plot
Network Network
updated 11.4 years ago by 68k • written 11.4 years ago by ▴ 130
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PostDoc opportunity
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11.4 years ago Guest User ★ 13k
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Pathview question
Network convert pathview Network convert pathview
11.5 years ago Luo Weijun ★ 1.6k
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WGCNA package
Network Network
updated 11.6 years ago by ★ 3.0k • written 11.6 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
11.6 years ago Robert Ivanek ▴ 750
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tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: width is too small
Network Network
11.8 years ago Paul Shannon ▴ 750
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RCytoscape: tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: width is too small
SystemsBiology Network RCytoscape SystemsBiology Network RCytoscape
11.8 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 12.0 years ago by 43k • written 12.0 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 12.0 years ago by ▴ 750 • written 12.0 years ago by ▴ 160
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IdeogramTrack and bigWig file errors in Gviz
ChIPSeq GO Network rtracklayer CAMERA chipseq Gviz ChIPSeq GO Network rtracklayer Gviz
updated 12.1 years ago by ★ 11k • written 12.1 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
12.2 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
12.3 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 12.3 years ago by 53k • written 12.3 years ago by ★ 3.0k
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(no subject)
Network Network
updated 12.5 years ago by 53k • written 12.5 years ago by ▴ 60
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Job opening, KCL Breakthrough Breast Cancer Research Unit
Sequencing Network Cancer Breast Sequencing Network Cancer Breast
12.5 years ago Lawler, Katherine ▴ 40
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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
12.5 years ago Michael Lawrence ★ 11k
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647
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Problem in Gap Filling in Metabolic networks
Network Network
12.6 years ago Ahmad ▴ 20
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1.3k
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5000 nodes RCytoscape
Network graph Network graph
12.6 years ago Paul Shannon ▴ 750
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10
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3.1k
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assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
12.6 years ago Julie Zhu ★ 4.3k
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MCS & ChemineR
Network Clustering PROcess ChemmineR Network Clustering PROcess ChemmineR
12.6 years ago Thomas Girke ★ 1.7k
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Visualization of metabolic network in lpSolve format
Network Network
12.7 years ago Denis Kazakiewicz ▴ 70
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1.2k
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Unable to
Network Network
updated 12.7 years ago by ★ 8.2k • written 12.7 years ago by ★ 13k
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1.1k
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Introductory workshop for RNA-seq 27-28 March 2013, Torino, Italy
Network oneChannelGUI Network oneChannelGUI
12.7 years ago raffaele calogero ▴ 500
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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
12.8 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 12.8 years ago by ★ 1.6k • written 12.8 years ago by ▴ 20
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906
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Stay in touch with me through LinkedIn
Network Network
12.8 years ago Shreyartha Mukherjee ▴ 80
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936
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Computer for the analysis of high-throughput genomic data
Sequencing Microarray GO Network Cancer Sequencing Microarray GO Network Cancer
12.8 years ago Steve Lianoglou ★ 13k
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RCytoscape on Windows
Network charm RCytoscape Network charm RCytoscape
12.9 years ago Paul Shannon ▴ 750
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[Geneanswers] About the meaning of colours in networks
Network GeneAnswers Network GeneAnswers
13.0 years ago Enrico Ferrero ▴ 10
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1.1k
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Connect with me on LinkedIn
Network Network
13.0 years ago gabriel teku ▴ 80
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ComBat
Transcription Genetics Pathways Network Survival Cancer Breast Colon Kidney Leukemia HIV
13.0 years ago SSc Array Core ▴ 10
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755
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GeneNetworkBuilder package
Network Network
13.0 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 13.1 years ago by ▴ 350 • written 13.1 years ago by ★ 13k
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help with biomaRt bioconductor - Filter upstream_flank NOT FOUND problem
Network biomaRt Network biomaRt
13.1 years ago Stefan Kroeger ▴ 10
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1.4k
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BioPAX parsing
Pathways Network Rgraphviz rBiopaxParser Pathways Network Rgraphviz rBiopaxParser
13.1 years ago Frank Kramer ▴ 10
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GeneAnswer package Query
Network graph Network graph
updated 13.2 years ago by ▴ 300 • written 13.2 years ago by ▴ 570
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Fwd: ASSIST on contrast matrix
Network Homo sapiens limma PROcess Network Homo sapiens limma PROcess
13.2 years ago Seyed Ahmad Mousavi ▴ 10
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627
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Variability in microarray data
Microarray GO Network Microarray GO Network
13.2 years ago Guest User ★ 13k
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4 Positions at EMBL
Sequencing Network Sequencing Network
13.2 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
13.3 years ago Robin Haw ▴ 50
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1.0k
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BioPAX parsing
Pathways Visualization Network graph Pathways Visualization Network graph
13.3 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
13.3 years ago Siebourg Juliane ▴ 10
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999
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2012 Systems Bioinformatics Workshop
SAGE Visualization Network SAGE Visualization Network
13.4 years ago Christopher Bare ▴ 10
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2.8k
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WGCNA chooseTopHubInEachModule function
Network Network
13.4 years ago Sudeep Sahadevan ▴ 20
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947
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BioPAX/SBPAX import for MicroArray Analysis and Hypothesis Building
Microarray Network Microarray Network
13.4 years ago Oliver Ruebenacker ▴ 110
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1
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979
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BioPAX/SBPAX import for MicroArray Analysis and Hypothesis Building
Microarray Pathways Network Microarray Pathways Network
updated 13.4 years ago by ★ 4.2k • written 13.4 years ago by ▴ 110
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1.2k
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DESeq Package Questions
Network edgeR DESeq Network edgeR DESeq
13.5 years ago Xin Davis ▴ 30
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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 13.5 years ago by ★ 4.2k • written 13.5 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
13.6 years ago Dan Tenenbaum ★ 8.2k
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4.0k
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Adjacency to network using R
Visualization Network convert Visualization Network convert
updated 13.6 years ago by ★ 4.2k • written 13.6 years ago by ▴ 120
180 results • Page 2 of 4
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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
we can investigate this issue. thank you for bringing it to our attention
Comment: deseq2 filter the low counts by Michael Love 43k
> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…
Comment: deseq2 filter the low counts by empty_mt • 0
Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …
Comment: deseq2 filter the low counts by Michael Love 43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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