Showing : pathview • reset
0
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216
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Pathview visualisation not including positive log2 fold changes
pathview Proteomics
updated 6 weeks ago by 68k • written 6 weeks ago by • 0
0
votes
2
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565
views
How to visualize these pathways using pathview
Salmo_salar RNASeq KEGG pathview
9 weeks ago • updated 7 weeks ago ingrid.h • 0
1
vote
4
replies
553
views
pathview - multiple states
pathview Pathways KEGG
4 months ago Philippine • 0
0
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0
replies
332
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO KEGG gage pathview
10 months ago danalvoronov ▴ 10
0
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1
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523
views
Help with identifying genes mapped to KEGG pathway using pathview
pathview
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
0
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4
replies
3.0k
views
pathview error "negative length vectors are not allowed
pathview kegg KEGG
updated 5 months ago by • 0 • written 18 months ago by • 0
0
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0
replies
1.0k
views
SSL connect error in e.g. pathview from R version 4 in Windows 10
pathview SSL curl
20 months ago Matthias • 0
1
vote
4
replies
1.8k
views
pathview - a species in KEGG pathway but not in 'korg'
pathview KEGG Oryza_sativa
22 months ago • updated 21 months ago Jiyoung Lee • 0
1
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1
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2.7k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 24 months ago by ★ 4.1k • written 24 months ago by ▴ 10
0
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2
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2.0k
views
pathview: Warning: Failed to download KEGG xml/png files, hsa04110 skipped!
pathview
2.0 years ago 덕윤 • 0
4
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3
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3.8k
views
only 0's may be mixed with negative subscripts
pathview
updated 2.1 years ago by ▴ 10 • written 8.3 years ago by ▴ 30
1
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3
replies
1.7k
views
Many NAs using TAIR IDs for plotting KEGG pathways using pathview
KEGG TAIR_IDs KEGGdzPathwaysGEO pathview
updated 2.3 years ago by 68k • written 2.4 years ago by • 0
4
votes
6
replies
5.1k
views
Pathview unable to download pathways
clusterProfiler KEGGgraph clusterpr KEGG pathview
updated 2.6 years ago by ★ 4.1k • written 2.8 years ago by ▴ 10
3
votes
13
replies
3.5k
views
pathview says my nonmodel species is unknown: "species invalid"
KEGGREST KEGG gage pathview
2.6 years ago • updated 2.2 years ago nute11a ▴ 10
0
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1
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1.1k
views
Pathview error Warning: Parsing ./mmu04928.xml file failed, please check the file!
KEGGgraph pathview
updated 2.8 years ago by ★ 4.1k • written 2.8 years ago by • 0
0
votes
1
reply
1.7k
views
Help with Pathview: No annotation package for a species, gene symbols not mapped!
annotation_package not_available_in_BioConductor pathview
updated 2.5 years ago by • 0 • written 3.1 years ago by • 0
2
votes
2
replies
1.3k
views
pathview returns incorrect mappings for yeast
org.Sc.sgd.db org.Sc pathview
3.2 years ago chase.mateusiak • 0
0
votes
3
replies
1.5k
views
pathview: unable to use option "out.suffix"
pathview
updated 3.8 years ago by ★ 1.6k • written 3.8 years ago by • 0
0
votes
3
replies
2.7k
views
Drawing custom KEGG pathways
pathview KEGG
written 3.9 years ago by ▴ 10
1
vote
2
replies
1.1k
views
Pathview won't render some KEGG pathways
pathview
3.9 years ago Duncan • 0
1
vote
2
replies
2.2k
views
PATHVIEW incorrect values being plotted in output
pathview org.Hs.eg.db
4.0 years ago • updated 3.9 years ago Rodrigo • 0
44
votes
29
replies
13k
views
.onLoad failed in loadNamespace() for 'org.Hs.eg.db'
org.Hs.eg.db pathview
updated 4.0 years ago by ▴ 130 • written 4.0 years ago by ▴ 160
0
votes
1
reply
1.2k
views
News: SBGNview manuscript on bioRxiv now
pathway SBGNview Reactome pathview PANTHER
written 4.0 years ago by ★ 1.6k
0
votes
0
replies
1.3k
views
Job: Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
singlecellRNA-Seq pathview statistics R
4.0 years ago • updated 3.9 years ago Luo Weijun ★ 1.6k
6
votes
5
replies
2.0k
views
KEGG analysis for plasmodium
KEGG gage gageData pathview
updated 4.1 years ago by ★ 1.6k • written 4.1 years ago by • 0
1
vote
1
reply
1.4k
views
News: SBGNview: Data Analysis, Integration and Visualization on 5000+ Pathways/3000+ Species
SBGNview pathways SBGNview.data pathview visualization
4.1 years ago Luo Weijun ★ 1.6k
1
vote
2
replies
1.4k
views
Can I create a gene set using GAGE?
gage pathview gageData
written 4.2 years ago by ▴ 40
0
votes
1
reply
1.2k
views
Change colors pathview
pathview
updated 4.3 years ago by ★ 1.6k • written 4.3 years ago by ▴ 30
0
votes
0
replies
1.1k
views
Job: Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
R statistics pathview singlecellRNA-Seq
4.4 years ago • updated 4.0 years ago Luo Weijun ★ 1.6k
0
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0
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1.4k
views
Pathview: empty metabolic map
pathview
4.5 years ago landenshanie ▴ 40
0
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2
replies
1.6k
views
Hightlight genes/metabolites in Pathview and ReactomePA
pathview ReactomePA
updated 4.8 years ago by 68k • written 4.8 years ago by • 0
0
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0
replies
824
views
Pathview colors only matching ids?
pathview
4.8 years ago okna0215 ▴ 10
1
vote
0
replies
1.2k
views
Pathview : why are some genes not colored?
pathview rna-seq
4.8 years ago okna0215 ▴ 10
0
votes
1
reply
999
views
Argument map.symbol converting IDs even when its value is FALSE
pathview
updated 4.9 years ago by ★ 4.0k • written 6.0 years ago by • 0
0
votes
1
reply
945
views
Multiple samples in pathview with different colors
pathview multiple samples
updated 3.8 years ago by • 0 • written 5.2 years ago by • 0
0
votes
0
replies
1.1k
views
gage function problem in R
gage R kegg pathview
updated 5.2 years ago by 43k • written 5.2 years ago by • 0
4
votes
4
replies
2.5k
views
How I interpret this plot from pathview
pathview kegg r pathway
5.4 years ago • updated 5.3 years ago AZ ▴ 30
0
votes
0
replies
1.3k
views
KEGG pathway analysis using gage/pathview non KEGG organism duplicate K IDs
gage pathview KEGG Gene enrichment analysis
5.5 years ago MimR • 0
0
votes
3
replies
1.7k
views
None of the genes or compounds mapped to the pathway!
pathview AnnotationDbi
updated 5.5 years ago by 43k • written 5.5 years ago by • 0
0
votes
0
replies
1.2k
views
Modifying a Pathview function which needs an internet connection so that it can work without an internet connection.
Pathview Gene Mapping KEGG
5.6 years ago omarrafiqued ▴ 50
0
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0
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886
views
pathview : kegg gene ID in the visualisation ?
pathview
5.6 years ago cedric.vmdl • 0
0
votes
2
replies
1.5k
views
Issue with xml files downloaded with `pathview()`
pathview kegg xml
updated 5.7 years ago by ★ 1.6k • written 5.7 years ago by ▴ 10
0
votes
2
replies
2.4k
views
pathview: object 'bods' not found
pathview
updated 5.7 years ago by ▴ 10 • written 6.6 years ago by • 0
0
votes
1
reply
1.0k
views
Pathview won't colour even with matching IDs
pathview
6.1 years ago francesco.gualdrini • 0
0
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0
replies
989
views
Help with mapping Kegg hsa01100 using pathview
kegg pathway pathview
6.1 years ago Ahdee ▴ 60
0
votes
0
replies
1.2k
views
Pathview input error: non-numeric variable in data frame
pathview kegg pathways package
6.5 years ago anc.informatics • 0
1
vote
5
replies
3.5k
views
KEGG enrichment for non-model
kegg pathway analysis non-model gage pathview
updated 3.7 years ago by • 0 • written 6.7 years ago by ▴ 40
0
votes
4
replies
3.2k
views
pathview: Warning: Download of hsa04110 xml and png files failed!
pathview
6.8 years ago masamiwata • 0
1
vote
4
replies
1.9k
views
Pathview error: ran fine yesterday
pathview
updated 6.8 years ago by 25k • written 7.8 years ago by ▴ 10
0
votes
1
reply
2.1k
views
Pathview results interpretation
pathview interpretation
6.9 years ago Aurora ▴ 20
50 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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