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visualization
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reset
4
votes
6
replies
209
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2
Transcriptomics
Visualization
R
limma
10 days ago • updated 5 days ago
mohammedtoufiq91
▴ 10
0
votes
1
reply
175
views
Unable to label in Enhanced Volcano
Visualization
updated 4 months ago by
Kevin Blighe
3.5k • written 4 months ago by
Sergio Barace Jimenez
• 0
0
votes
4
replies
331
views
rtracklayer can't access hg38 on UCSC?
rtracklayer
Visualization
updated 6 months ago by
Hervé Pagès
15k • written 6 months ago by
chase.mateusiak
• 0
1
vote
1
reply
434
views
News:
SBGNview: Data Analysis, Integration and Visualization on 5000+ Pathways/3000+ Species
SBGNview
pathways
SBGNview.data
pathview
visualization
15 months ago • updated 14 months ago
Luo Weijun
★ 1.5k
1
vote
3
replies
589
views
copy number variation analysis (CNV)
copynumber
plot
visualization
NGS
gene
updated 17 months ago by
Ram
▴ 150 • written 19 months ago by
sijing.gsj
• 0
2
votes
2
replies
431
views
Can't display protein domain data from UCSC table unipDomain using Gviz
Gviz
protein
visualization
UcscTrack
protein domains
updated 20 months ago by
James W. MacDonald
60k • written 20 months ago by
paul.jaschke
▴ 10
5
votes
11
replies
582
views
Visualization tool for GC-bias in SE data?
GC-bias
ALPINE
visualization
updated 23 months ago by
Michael Love
37k • written 23 months ago by
AKSR
▴ 20
0
votes
0
replies
296
views
Sample grouping (phenoData) and visualization in R package- HtqPCR
HtqPCR
grouping
visualization
R
phenoData
2.8 years ago
mohammedtoufiq91
▴ 10
0
votes
9
replies
921
views
visualizing alignment without realignment
msa
alignment
visualization
updated 3.2 years ago by
Martin Morgan
25k • written 3.2 years ago by
tim.ivanov.92
• 0
0
votes
8
replies
5.2k
views
How to generate a volcano plot when p-values from DESeq2 are zero?
deseq2
pvalue
visualization
enhancedvolcano
rnaseq
updated 3.3 years ago by
Michael Love
37k • written 3.3 years ago by
ricardo3889
• 0
2
votes
2
replies
555
views
What can be done to separate the healthy and patient samples in PCA plot and Distance matrix
deseq2
PCAplot
Visualization
updated 3.4 years ago by
Michael Love
37k • written 3.4 years ago by
Mithil Gaikwad
• 0
1
vote
2
replies
624
views
Package for custom visualization of multiple sequence alignment
MSA
visualization
updated 3.6 years ago by
ulrich.bodenhofer
▴ 20 • written 3.6 years ago by
tim.ivanov.92
• 0
3
votes
3
replies
564
views
how to plot trends for differentialy expressed genes from normalized count matrix (EdgeR)
edger
clustering
visualization
updated 3.7 years ago by
James W. MacDonald
60k • written 3.7 years ago by
thindmarsmission
• 0
0
votes
0
replies
595
views
Netbiov vertex.color vector length error
netowrk
visualization
3.8 years ago
Wojeff
• 0
0
votes
4
replies
804
views
Deseq2 problem visualizing gene expression with batch corrected values
deseq2
limma
differential expression
visualization
updated 3.9 years ago by
Michael Love
37k • written 3.9 years ago by
Mbosio85
• 0
6
votes
12
replies
3.8k
views
EdgeR: Explaning dispersion types to newbies
edger
dispersion
estimatedispersions
visualization
teaching
updated 3.9 years ago by
Aaron Lun
★ 27k • written 3.9 years ago by
Mr.RB
▴ 20
0
votes
0
replies
696
views
pathview and gage server connection issue
pathview
gage
pathway analysis
kegg
visualization
4.3 years ago
Luo Weijun
★ 1.5k
0
votes
0
replies
586
views
spotSegmentation package: How to "display the entire block of segmented spots at the end of processing"
spotsegmentation
argument
visualization
4.7 years ago
rene_houtman
• 0
2
votes
4
replies
999
views
chimeraviz - import own fusion file for visualization
visualization
chimeraviz
updated 10 months ago by
Iman
• 0 • written 4.9 years ago by
verena.tischler
▴ 10
0
votes
0
replies
912
views
News:
Pathview Web server published in NAR
pathway analysis
visualization
data integration
omics
pathview
News
5.0 years ago
Luo Weijun
★ 1.5k
0
votes
1
reply
745
views
Change DEXSeq plot: Intron length/width and genes from - strand
rnaseq
r
dexseq
visualization
5.0 years ago
aleipz
• 0
0
votes
3
replies
1.4k
views
RNAseq read coverage plot: What tool?
rnaseq
visualization
plotcoveragehist
updated 5.1 years ago by
Ou, Jianhong
★ 1.3k • written 5.1 years ago by
alakatos
▴ 120
2
votes
2
replies
2.3k
views
How can I visualize Gene Set Enrichment Results from gseGo fun. (clusterProfiler)?
ggplot2
clusterprofiler
visualization
gseGo
5.1 years ago • updated 18 months ago
tcalvo
▴ 70
0
votes
2
replies
853
views
DMRcate DMR.plot Turn Off Group Means
dmrcate
visualization
updated 5.4 years ago by
Tim Peters
▴ 120 • written 5.4 years ago by
csugai
• 0
0
votes
7
replies
1.4k
views
Bioconductor 2.6 is released
Sequencing
Microarray
Visualization
Infrastructure
PROcess
beadarray
keggorthology
eisa
updated 5.8 years ago by
wangyizhusss
• 0 • written 12.1 years ago by
Patrick Aboyoun
1.6k
1
vote
0
replies
972
views
News:
BioCAsia, 4th November 2016, Brisbane, Australia
conference
transcription
epigenomics
visualization
infrastructure
News
5.9 years ago
Matthew Ritchie
▴ 1000
0
votes
1
reply
789
views
Survey on interactive visualization and Bioconductor
visualization
epivizr
6.0 years ago • updated 5.9 years ago
Hector Corrada Bravo
▴ 60
0
votes
1
reply
1.1k
views
ChIPseeker gene body plot
chipseeker
visualization
updated 6.0 years ago by
Guangchuang Yu
★ 1.2k • written 6.0 years ago by
igor
▴ 40
7
votes
0
replies
2.8k
views
Tutorial:
New edX "Data analysis for Life Sciences" module: High performance computing for reproducible genomics
annotation
genomicranges
visualization
docker
shiny
Tutorial
6.2 years ago
Vincent J. Carey, Jr.
6.6k
0
votes
0
replies
1.2k
views
Pathview Web Server: user friendly pathway visualization and data integration
pathview
pathway analysis
visualization
web server
omics data
6.4 years ago
Weijun Luo
• 0
3
votes
5
replies
1.6k
views
Explanation of warning output of pathview regarding visualization of a KEGG pathway with Graphviz format
pathview
clusterProfiler
KEGGpath
visualization
Graphviz
updated 6.5 years ago by
Luo Weijun
★ 1.5k • written 6.6 years ago by
svlachavas
▴ 780
0
votes
5
replies
1.6k
views
Gene Symbol with Pathview
pathview
bioconductor
kegg
visualization
updated 6.6 years ago by
Luo Weijun
★ 1.5k • written 6.6 years ago by
abhinavbn
• 0
3
votes
0
replies
1.2k
views
News:
BioCAsia, 8 Sept 2015, Tokyo
sequencing
transcription
epigenomics
visualization
infrastructure
News
6.9 years ago • updated 6.8 years ago
Matthew Ritchie
▴ 1000
0
votes
0
replies
985
views
flowWorkspace and ggcyto
flowworkspace
flow cytometry
visualization
6.8 years ago
Jiang, Mike
★ 1.3k
11
votes
0
replies
4.8k
views
Tutorial:
Introduction to Bioconductor for high-throughput sequence analysis
GenomicRanges
Annotation
RNAseq
visualization
Tutorial
6.9 years ago
Martin Morgan
25k
8
votes
0
replies
2.8k
views
Tutorial:
Statistics and Computing in Genome Science (CSAMA) Course Material
rnaseq
chipseq
visualization
metagenomics
proteomics
Tutorial
6.9 years ago
Martin Morgan
25k
1
vote
3
replies
1.4k
views
Visualizing gene counts and variance stabilization
deseq2
rnaseq
variancestabilizingtransformation
visualization
updated 7.0 years ago by
Michael Love
37k • written 7.0 years ago by
ysdel
▴ 40
0
votes
2
replies
2.5k
views
Mapping gene IDs to gene symbol of KEGG pathways with "Pathview"
Pathview
KEGG
annotation
gene symbol
visualization
updated 7.0 years ago by
Luo Weijun
★ 1.5k • written 7.0 years ago by
alakatos
▴ 120
0
votes
1
reply
1.1k
views
Graphic representation of mroast results
mroast
visualization
7.0 years ago
Elena Serrano
▴ 30
1
vote
2
replies
2.0k
views
gene expression visualization: lineplot with ggplot2
ggplot2
lineplot
visualization
updated 7.0 years ago by
Jeremy Ng
▴ 180 • written 7.0 years ago by
alakatos
▴ 120
0
votes
0
replies
957
views
Circos Styling plots is now easy with canceR package
canceR
visualization
omiccircos
7.0 years ago
kmezhoud
▴ 10
1
vote
1
reply
1.0k
views
Visualizing Structural variants
visualization
SV
updated 7.1 years ago by
Vincent J. Carey, Jr.
6.6k • written 7.1 years ago by
Abhishek Pratap
▴ 170
0
votes
0
replies
1.4k
views
Job:
Post-Doctoral Research Fellow - Patient Genomics Data Visualization
visualization
genomics
personalized medicine
systemsbiology
js
Job
7.2 years ago
Hamid Bolouri
▴ 50
0
votes
7
replies
3.6k
views
Visualization of rownames in the heatmap.2 function for selected DE genes of a microarray dataset
heatmap.2
gplots
differential gene expression
visualization
7.2 years ago
svlachavas
▴ 780
1
vote
0
replies
1.4k
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
7.2 years ago
e.schmidt
▴ 10
0
votes
0
replies
985
views
News:
OmicCircos was updated
visualization
omiccircos
News
7.2 years ago
Hu, Ying NIH/NCI [E]
▴ 50
0
votes
6
replies
2.3k
views
Gviz::plotTracks for BiomartGeneRegionTrack() produces empty plots
gviz
visualization
7.4 years ago • updated 7.3 years ago
Asta Laiho
▴ 120
2
votes
0
replies
814
views
Interactive Visualization with Epivizr (what's new in this release)
epivizr
visualization
7.6 years ago
Hector Corrada Bravo
▴ 60
2
votes
1
reply
1.7k
views
ggbio: examples of overlaying multiple assay datasets
ggbio
visualization
ggbio
updated 7.7 years ago by
Panagiotis Moulos
▴ 30 • written 7.7 years ago by
Abhishek Pratap
▴ 170
0
votes
6
replies
2.6k
views
Fwd: WGCNA: labeledHeatmap and verboseScatterplot correlations and p-values are not the same
Visualization
Visualization
7.8 years ago
Peter Langfelder
★ 2.6k
50 results • Page
1 of 1
Recent ...
Replies
Comment: Italicise
by
Pau
• 0
They're the same: example of the vignette: "italic('VCAM1')" and result from my data: "italic('CARS1')" As I am running against time be…
Comment: Can Differential Isoform expression analysis can be performed using DESeq2 packa
by
priyanka.m
• 0
Thank you for the suggestions. I will try to compare my results and accordingly interpret the two.
Answer: [sva] Error in density.default(x, adjust = adj) : 'x' contains missing values
by
wahaha
• 0
I found the reason, because some gene expression levels are 0 in all samples. you can add these code to check the data: >exp_mean <- appl…
Answer: DESeq2 how to specify contrast to test difference of differences
by
Nicole
• 0
The comment from @mikelove about specifying numeric contrasts answered my question. This code is not standalone, but I will leave it here i…
Comment: DESeq2 how to specify contrast to test difference of differences
by
Nicole
• 0
Thank you, @mikelove - that did it! The results make sense now. From my original post, could you clarify what the `group1w.sexfemale` contr…
Votes
Answer: DESeq2 how to specify contrast to test difference of differences
Comment: DESeq2 how to specify contrast to test difference of differences
Answer: Confused about the design matrix in edgeR: How to tell R to consider one level a
Answer: biomaRt error unable to fix: need help troubleshooting
Answer: edgeR : results from goana and kegga functions show opposite sig. p-value
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