Showing : visualization • reset
0
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6
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2.9k
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Gviz::plotTracks for BiomartGeneRegionTrack() produces empty plots
gviz visualization
9.3 years ago • updated 9.2 years ago Asta Laiho ▴ 120
0
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4
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1.3k
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Pathview published in Bioinformatics
Visualization pathview Visualization pathview
10.8 years ago Luo Weijun ★ 1.6k
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5
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2.6k
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Gene Symbol with Pathview
pathview bioconductor kegg visualization
updated 8.5 years ago by ★ 1.6k • written 8.5 years ago by • 0
0
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5
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1.9k
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Question regarding cellhts2 output
Normalization Visualization PROcess cellHTS2 ASSIGN Normalization Visualization PROcess
11.0 years ago maziz@tgen.org ▴ 70
0
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6
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3.3k
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Fwd: WGCNA: labeledHeatmap and verboseScatterplot correlations and p-values are not the same
Visualization Visualization
9.7 years ago Peter Langfelder ★ 3.0k
0
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2
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897
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ANN: Bioconductor short course June 1-3 in Seattle
Preprocessing Visualization Cancer Preprocessing Visualization Cancer
19.0 years ago Seth Falcon ★ 7.4k
4
votes
6
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1.4k
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
23 months ago mohammedtoufiq91 ▴ 10
0
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4
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1.4k
views
rtracklayer can't access hg38 on UCSC?
rtracklayer Visualization
updated 2.4 years ago by 16k • written 2.4 years ago by • 0
3
votes
5
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2.3k
views
Explanation of warning output of pathview regarding visualization of a KEGG pathway with Graphviz format
pathview clusterProfiler KEGGpath visualization Graphviz
updated 8.4 years ago by ★ 1.6k • written 8.4 years ago by ▴ 830
0
votes
7
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2.2k
views
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
0
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2
replies
2.6k
views
DESeq2 error
Visualization Clustering DESeq2 Visualization Clustering DESeq2
10.2 years ago Michael Love 41k
0
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2
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1.4k
views
proposed: a bridge between R and Cytoscape
Visualization Network graph Visualization Network graph
updated 13.8 years ago by ★ 13k • written 13.8 years ago by ★ 1.1k
2
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4
replies
1.6k
views
chimeraviz - import own fusion file for visualization
visualization chimeraviz
updated 2.7 years ago by • 0 • written 6.8 years ago by ▴ 10
0
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2
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2.1k
views
What RNA-Seq expression estimates to use for plotting to show voom/limma Differential expression
Visualization graph limma Visualization graph limma
updated 10.2 years ago by 50k • written 10.2 years ago by ▴ 30
0
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3
replies
2.2k
views
RNAseq read coverage plot: What tool?
rnaseq visualization plotcoveragehist
updated 7.0 years ago by ★ 1.3k • written 7.0 years ago by ▴ 130
0
votes
2
replies
1.4k
views
DMRcate DMR.plot Turn Off Group Means
dmrcate visualization
updated 7.2 years ago by ▴ 170 • written 7.2 years ago by • 0
0
votes
1
reply
1.3k
views
Survey on interactive visualization and Bioconductor
visualization epivizr
7.9 years ago • updated 7.8 years ago Hector Corrada Bravo ▴ 60
2
votes
2
replies
4.2k
views
How can I visualize Gene Set Enrichment Results from gseGo fun. (clusterProfiler)?
ggplot2 clusterprofiler visualization gseGo
7.0 years ago • updated 3.4 years ago tcalvo ▴ 90
1
vote
3
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1.9k
views
Visualizing gene counts and variance stabilization
deseq2 rnaseq variancestabilizingtransformation visualization
updated 8.8 years ago by 41k • written 8.8 years ago by ▴ 40
0
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1
reply
1.0k
views
status of visnab
Visualization ggbio Gviz Visualization ggbio Gviz
updated 11.0 years ago by ▴ 420 • written 11.0 years ago by ▴ 410
1
vote
1
reply
1.4k
views
Visualizing Structural variants
visualization SV
updated 9.0 years ago by 6.7k • written 9.0 years ago by ▴ 190
1
vote
2
replies
2.7k
views
gene expression visualization: lineplot with ggplot2
ggplot2 lineplot visualization
updated 8.9 years ago by ▴ 180 • written 8.9 years ago by ▴ 130
0
votes
1
reply
1.9k
views
Entrez Gene ID to Probe Set Name
aCGH Sequencing miRNA Microarray Annotation Normalization GO Preprocessing Visualization
updated 15.5 years ago by ★ 7.2k • written 15.5 years ago by ▴ 300
2
votes
2
replies
1.1k
views
What can be done to separate the healthy and patient samples in PCA plot and Distance matrix
deseq2 PCAplot Visualization
updated 5.3 years ago by 41k • written 5.3 years ago by • 0
0
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2
replies
3.4k
views
Mapping gene IDs to gene symbol of KEGG pathways with "Pathview"
Pathview KEGG annotation gene symbol visualization
updated 8.8 years ago by ★ 1.6k • written 8.8 years ago by ▴ 130
0
votes
1
reply
712
views
comparative genomics
Visualization Visualization
updated 18.9 years ago by 21k • written 18.9 years ago by ▴ 30
1
vote
1
reply
2.3k
views
Using DESeq2: experimental design and extracting results
Visualization DESeq DESeq2 Visualization DESeq DESeq2
updated 9.7 years ago by 41k • written 9.7 years ago by ▴ 60
0
votes
1
reply
1.0k
views
Several questions goCluster and GOstats...
Annotation GO Visualization Yeast goCluster Annotation GO Visualization Yeast goCluster
updated 18.6 years ago by ▴ 60 • written 18.6 years ago by ▴ 140
2
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1
reply
3.5k
views
Heatmap function
Visualization Visualization
updated 20.5 years ago by ▴ 210 • written 20.5 years ago by ▴ 150
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1
reply
1.4k
views
ChIPseeker gene body plot
chipseeker visualization
updated 7.9 years ago by ★ 1.2k • written 7.9 years ago by ▴ 40
2
votes
1
reply
2.1k
views
ggbio: examples of overlaying multiple assay datasets
ggbio visualization ggbio
updated 9.6 years ago by ▴ 30 • written 9.6 years ago by ▴ 190
0
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1
reply
3.0k
views
GAGE/Pathview RNA-Seq Data Pathway and Gene-set Analysis Workflows
GO Visualization edgeR gage GO Visualization edgeR gage
10.6 years ago Luo Weijun ★ 1.6k
0
votes
1
reply
698
views
MA plots and assumptions
Normalization Visualization Normalization Visualization
updated 11.0 years ago by ★ 13k • written 11.0 years ago by ▴ 360
0
votes
1
reply
8.3k
views
Using DESeq normalized gene count to replace FPKM?
Visualization DESeq Visualization DESeq
updated 10.7 years ago by ★ 3.7k • written 10.7 years ago by ▴ 10
0
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2
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2.5k
views
Questions about multi-factor contrast setting in DESeq2
GO Visualization Clustering limma edgeR DESeq2 GO Visualization Clustering limma edgeR
updated 10.1 years ago by ▴ 380 • written 10.1 years ago by 41k
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2
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1.6k
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Visualizing GOstats HyperGTest results
GO Visualization GOstats GO Visualization GOstats
updated 16.3 years ago by 65k • written 16.3 years ago by ▴ 600
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1
reply
1.8k
views
DEseq for sample clustering
Visualization Clustering DESeq Visualization Clustering DESeq
updated 12.4 years ago by ★ 13k • written 12.4 years ago by ★ 13k
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5
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3.5k
views
Adjacency to network using R
Visualization Network convert Visualization Network convert
updated 12.1 years ago by ★ 4.2k • written 12.1 years ago by ▴ 120
0
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5
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1.6k
views
Visualization of alignments with mismatch bases
SNP Coverage Alignment Visualization ggbio SNP Coverage Alignment Visualization ggbio
updated 11.1 years ago by ▴ 420 • written 11.1 years ago by ★ 11k
0
votes
1
reply
780
views
cosmo package - Tk requirement?
Visualization cosmo Visualization cosmo
updated 17.3 years ago by ▴ 30 • written 17.3 years ago by ▴ 10
0
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1
reply
2.4k
views
Visualising the GO structure (RNA-seq) using topGO and goseq
Microarray GO Visualization Microarray GO Visualization
updated 13.1 years ago by ★ 7.2k • written 13.1 years ago by ▴ 140
0
votes
1
reply
2.2k
views
Bioconductor Digest, Vol 120, Issue 12
Microarray qPCR Coverage Annotation Pathways Visualization Cancer Breast Organism affy
11.2 years ago Matthew Thornton ▴ 350
0
votes
1
reply
838
views
Visualization of multiple alignments in bioconductor
Genetics Visualization Genetics Visualization
updated 15.8 years ago by 25k • written 15.8 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Color in the lefs of a dendrogram?
Visualization Clustering Visualization Clustering
updated 19.5 years ago by ▴ 330 • written 19.5 years ago by ▴ 270
0
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4
replies
8.9k
views
Agilent 2-color Microarray data analysis tutorial
Microarray Visualization Clustering Microarray Visualization Clustering
updated 14.3 years ago by 25k • written 14.3 years ago by ▴ 140
0
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3
replies
1.5k
views
Bioconductor 2.3 is released
aCGH Sequencing miRNA Microarray Visualization Bayesian Classification Survival Yeast LPE
15.5 years ago Patrick Aboyoun ★ 1.6k
0
votes
1
reply
1.4k
views
2 Courses Near You - (1) Introduction to R/S+ programming: Microarrays Analysis and Bioconductor, (2) R/Splus Fundamentals and Programming Techniques
Visualization Clustering Visualization Clustering
updated 17.9 years ago by ▴ 130 • written 17.9 years ago by ▴ 570
0
votes
2
replies
1.5k
views
FlowViz graphics problems
Microarray Visualization graph flowCore flowViz Microarray Visualization graph flowCore
updated 14.9 years ago by ▴ 340 • written 14.9 years ago by ▴ 20
0
votes
1
reply
1.3k
views
Talk & Poster - Final Call - qPCR 2009 Event
SNP qPCR Normalization Visualization Regression Cancer probe PROcess microRNA SNP qPCR
15.4 years ago • updated 15.3 years ago qPCR Platform - the reference in real-t… ▴ 170
0
votes
1
reply
1.1k
views
LIMMA, SAM & clustering
Visualization Clustering limma Visualization Clustering limma
updated 18.2 years ago by 65k • written 18.2 years ago by ▴ 100
50 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq filtering specific to contrasts by Michael Love 41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0
Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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