Showing : Visualization • reset
0
votes
2
replies
401
views
Missing Band on Volcano Plot from DESeq2
DESeq2 Visualization DifferentialExpression
updated 3 months ago by 42k • written 3 months ago by • 0
0
votes
0
replies
276
views
Catalyst::cluster function does NOT produce the same results when setting seed
visua Visualization CATALYST
7 months ago elefth.pavlos ▴ 40
5
votes
11
replies
3.5k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 13 months ago by ▴ 20
0
votes
2
replies
933
views
ggplot2 bar plot
R Visualization ggplot2
21 months ago Jitendra ▴ 10
4
votes
6
replies
1.5k
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
2.1 years ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
996
views
Unable to label in Enhanced Volcano
Visualization
updated 2.5 years ago by ★ 3.9k • written 2.5 years ago by • 0
0
votes
4
replies
1.5k
views
rtracklayer can't access hg38 on UCSC?
rtracklayer Visualization
updated 2.6 years ago by 16k • written 2.7 years ago by • 0
1
vote
1
reply
1.2k
views
News: SBGNview: Data Analysis, Integration and Visualization on 5000+ Pathways/3000+ Species
SBGNview pathways SBGNview.data pathview visualization
3.3 years ago Luo Weijun ★ 1.6k
1
vote
3
replies
1.8k
views
copy number variation analysis (CNV)
copynumber plot visualization NGS gene
updated 3.6 years ago by ▴ 210 • written 3.7 years ago by • 0
2
votes
2
replies
1.3k
views
Can't display protein domain data from UCSC table unipDomain using Gviz
Gviz protein visualization UcscTrack protein domains
updated 3.8 years ago by 66k • written 3.8 years ago by ▴ 10
5
votes
11
replies
1.6k
views
Visualization tool for GC-bias in SE data?
GC-bias ALPINE visualization
updated 4.0 years ago by 42k • written 4.0 years ago by ▴ 20
0
votes
0
replies
761
views
Sample grouping (phenoData) and visualization in R package- HtqPCR
HtqPCR grouping visualization R phenoData
4.9 years ago mohammedtoufiq91 ▴ 10
0
votes
9
replies
2.0k
views
visualizing alignment without realignment
msa alignment visualization
updated 5.4 years ago by 25k • written 5.4 years ago by • 0
0
votes
8
replies
13k
views
How to generate a volcano plot when p-values from DESeq2 are zero?
deseq2 pvalue visualization enhancedvolcano rnaseq
updated 5.4 years ago by 42k • written 5.4 years ago by • 0
2
votes
2
replies
1.2k
views
What can be done to separate the healthy and patient samples in PCA plot and Distance matrix
deseq2 PCAplot Visualization
updated 5.5 years ago by 42k • written 5.5 years ago by • 0
1
vote
2
replies
1.3k
views
Package for custom visualization of multiple sequence alignment
MSA visualization
updated 5.7 years ago by ▴ 20 • written 5.7 years ago by • 0
3
votes
3
replies
1.1k
views
how to plot trends for differentialy expressed genes from normalized count matrix (EdgeR)
edger clustering visualization
updated 5.8 years ago by 66k • written 5.8 years ago by ▴ 10
0
votes
0
replies
1.0k
views
Netbiov vertex.color vector length error
netowrk visualization
5.9 years ago Wojeff • 0
0
votes
4
replies
1.4k
views
Deseq2 problem visualizing gene expression with batch corrected values
deseq2 limma differential expression visualization
updated 6.0 years ago by 42k • written 6.0 years ago by • 0
8
votes
12
replies
9.2k
views
EdgeR: Explaning dispersion types to newbies
edger dispersion estimatedispersions visualization teaching
updated 6.0 years ago by ★ 28k • written 6.0 years ago by ▴ 20
0
votes
0
replies
1.3k
views
pathview and gage server connection issue
pathview gage pathway analysis kegg visualization
6.4 years ago Luo Weijun ★ 1.6k
0
votes
0
replies
1.1k
views
spotSegmentation package: How to "display the entire block of segmented spots at the end of processing"
spotsegmentation argument visualization
6.8 years ago rene_houtman • 0
2
votes
4
replies
1.7k
views
chimeraviz - import own fusion file for visualization
visualization chimeraviz
updated 2.9 years ago by • 0 • written 7.0 years ago by ▴ 10
0
votes
0
replies
1.5k
views
News: Pathview Web server published in NAR
pathway analysis visualization data integration omics pathview News
7.1 years ago Luo Weijun ★ 1.6k
0
votes
1
reply
1.2k
views
Change DEXSeq plot: Intron length/width and genes from - strand
rnaseq r dexseq visualization
7.2 years ago aleipz • 0
0
votes
3
replies
2.3k
views
RNAseq read coverage plot: What tool?
rnaseq visualization plotcoveragehist
updated 7.2 years ago by ★ 1.3k • written 7.2 years ago by ▴ 130
2
votes
2
replies
4.5k
views
How can I visualize Gene Set Enrichment Results from gseGo fun. (clusterProfiler)?
ggplot2 clusterprofiler visualization gseGo
7.2 years ago • updated 3.6 years ago tcalvo ▴ 90
0
votes
2
replies
1.5k
views
DMRcate DMR.plot Turn Off Group Means
dmrcate visualization
updated 7.5 years ago by ▴ 180 • written 7.5 years ago by • 0
0
votes
7
replies
2.3k
views
Bioconductor 2.6 is released
Sequencing Microarray Visualization Infrastructure PROcess beadarray keggorthology eisa
updated 7.9 years ago by • 0 • written 14.2 years ago by ★ 1.6k
1
vote
0
replies
1.6k
views
News: BioCAsia, 4th November 2016, Brisbane, Australia
conference transcription epigenomics visualization infrastructure News
8.0 years ago Matthew Ritchie ▴ 1000
0
votes
1
reply
1.3k
views
Survey on interactive visualization and Bioconductor
visualization epivizr
8.1 years ago • updated 8.0 years ago Hector Corrada Bravo ▴ 60
0
votes
1
reply
1.5k
views
ChIPseeker gene body plot
chipseeker visualization
updated 8.1 years ago by ★ 1.2k • written 8.1 years ago by ▴ 50
7
votes
0
replies
3.8k
views
Tutorial: New edX "Data analysis for Life Sciences" module: High performance computing for reproducible genomics
annotation genomicranges visualization docker shiny Tutorial
8.3 years ago Vincent J. Carey, Jr. 6.7k
0
votes
0
replies
1.7k
views
Pathview Web Server: user friendly pathway visualization and data integration
pathview pathway analysis visualization web server omics data
8.5 years ago Weijun Luo • 0
3
votes
5
replies
2.4k
views
Explanation of warning output of pathview regarding visualization of a KEGG pathway with Graphviz format
pathview clusterProfiler KEGGpath visualization Graphviz
updated 8.6 years ago by ★ 1.6k • written 8.7 years ago by ▴ 830
0
votes
5
replies
2.7k
views
Gene Symbol with Pathview
pathview bioconductor kegg visualization
updated 8.7 years ago by ★ 1.6k • written 8.7 years ago by • 0
3
votes
0
replies
1.8k
views
News: BioCAsia, 8 Sept 2015, Tokyo
sequencing transcription epigenomics visualization infrastructure News
9.0 years ago • updated 8.9 years ago Matthew Ritchie ▴ 1000
0
votes
0
replies
1.5k
views
flowWorkspace and ggcyto
flowworkspace flow cytometry visualization
8.9 years ago Jiang, Mike ★ 1.3k
11
votes
0
replies
5.9k
views
Tutorial: Introduction to Bioconductor for high-throughput sequence analysis
GenomicRanges Annotation RNAseq visualization Tutorial
9.0 years ago Martin Morgan 25k
8
votes
0
replies
3.6k
views
Tutorial: Statistics and Computing in Genome Science (CSAMA) Course Material
rnaseq chipseq visualization metagenomics proteomics Tutorial
9.0 years ago Martin Morgan 25k
1
vote
3
replies
2.0k
views
Visualizing gene counts and variance stabilization
deseq2 rnaseq variancestabilizingtransformation visualization
updated 9.0 years ago by 42k • written 9.0 years ago by ▴ 40
0
votes
2
replies
3.6k
views
Mapping gene IDs to gene symbol of KEGG pathways with "Pathview"
Pathview KEGG annotation gene symbol visualization
updated 9.1 years ago by ★ 1.6k • written 9.1 years ago by ▴ 130
0
votes
1
reply
1.6k
views
Graphic representation of mroast results
mroast visualization
9.1 years ago Elena Serrano ▴ 30
1
vote
2
replies
2.8k
views
gene expression visualization: lineplot with ggplot2
ggplot2 lineplot visualization
updated 9.1 years ago by ▴ 180 • written 9.1 years ago by ▴ 130
0
votes
0
replies
1.4k
views
Circos Styling plots is now easy with canceR package
canceR visualization omiccircos
9.2 years ago kmezhoud ▴ 10
1
vote
1
reply
1.5k
views
Visualizing Structural variants
visualization SV
updated 9.2 years ago by 6.7k • written 9.2 years ago by ▴ 190
0
votes
0
replies
1.8k
views
Job: Post-Doctoral Research Fellow - Patient Genomics Data Visualization
visualization genomics personalized medicine systemsbiology js Job
9.3 years ago Hamid Bolouri ▴ 50
0
votes
7
replies
5.0k
views
Visualization of rownames in the heatmap.2 function for selected DE genes of a microarray dataset
heatmap.2 gplots differential gene expression visualization
9.3 years ago svlachavas ▴ 830
1
vote
0
replies
2.0k
views
Job: PhD position - Heidelberg: Bioinformatic analysis of high-throughput and image-based RNAi screening data
high-throughput screening RNAi image analysis data integration visualization Job
9.3 years ago e.schmidt ▴ 10
0
votes
0
replies
1.4k
views
News: OmicCircos was updated
visualization omiccircos News
9.3 years ago Hu, Ying NIH/NCI [E] ▴ 50
50 results • Page 1 of 1
Recent ...
Replies
Comment: Ranking the GSEA Results by Lluís Revilla Sancho ▴ 730
You can have the ranking without the cutoff. If you don't keep any gene set after the cutoff then there is nothing to rank as you said, so…
Answer: Create a Graph w/ Only the Genes Interaction by Antonio • 0
Thank you all, I solved my issue by creating a for loop. Cheers!
Comment: Ranking the GSEA Results by alserg ▴ 270
Apparently, it sends a notification to the developer on a new message after the tags were updated :) but not the change of tags itself
Comment: Ranking the GSEA Results by alserg ▴ 270
Where did you see ranking of genes by `log2FC * (-log10 p-value)`? I don't think I ever saw one and not sure what it should achieve. Aren't…
Comment: Trouble Installing DADA2 (warning: R new user) by shepherl 3.9k
As far as this ERROR for Bioc requires R version, Bioconductor is closely tied to an R release. Depending if you tried to use a premade s…
Votes
Comment: Ranking the GSEA Results
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
Comment: How to get the DMR?
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
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