Showing : pathways • reset
2
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2
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161
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How many of my genes from my gene list are in each KEGG pathway?
Pathways clusterProfiler gseKEGG KEGG
11 days ago • updated 10 days ago julia_mcdonough • 0
0
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0
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338
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Job: Postdoc for computational biology on cancer omics data analysis at Liang lab of Wistar Institute, Philadelphia, US
omics cancerdata Pathways
3 months ago omicsresearch • 0
0
votes
1
reply
483
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topGO() analysis of DMPs in missMethyl methylation analysis
DNAMethylation missMethyl Pathways
12 months ago Grace • 0
0
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0
replies
428
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Changing pathway names in pathway analysis
pathways Pathways
14 months ago Katharina • 0
0
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0
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588
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Job: EPA Postdoctoral Fellowship in Bioinformatics and Computational Toxicology
MethylSeq Transcriptomics Pathways Epigenetics RNASeq
17 months ago whduke • 0
0
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0
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713
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Pathway Analysis using GAGE
gage RNASeq gageData Pathways
2.0 years ago OST • 0
1
vote
2
replies
809
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Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
2.1 years ago m.glymenaki • 0
0
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6
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3.7k
views
extracting the KEGG pathway for a set of genes
Pathways KEGG
2.7 years ago Bogdan ▴ 670
0
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4
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4.9k
views
Pheatmap/Complexheatmap: making a continuous color scale with NAs
R Pathways pheatmap limma
updated 3.1 years ago by ▴ 350 • written 3.1 years ago by ▴ 10
1
vote
1
reply
1.1k
views
News: SBGNview: Data Analysis, Integration and Visualization on 5000+ Pathways/3000+ Species
SBGNview pathways SBGNview.data pathview visualization
3.1 years ago Luo Weijun ★ 1.6k
2
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0
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920
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Saving the results of the topGO package as an R object (rda/rds file).
RNASeq GO topGO Pathways
3.2 years ago Ben ▴ 50
2
votes
2
replies
1.1k
views
Pathway analysis and GO terms analysis with goseq
KEGG Pathways GO goseq
updated 3.4 years ago by 65k • written 3.4 years ago by • 0
2
votes
1
reply
2.0k
views
pre-filtering gene sets for GSVA/ssGSEA
gsea ssgsea gsva pathways
updated 3.8 years ago by ★ 3.3k • written 3.8 years ago by ▴ 40
0
votes
1
reply
1.7k
views
KEGGREST keggGet fails to retrieve modules, but not pathways
keggrest software error pathways modules kegg
updated 4.0 years ago by 25k • written 4.0 years ago by • 0
0
votes
4
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988
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Fonction of genes/metabolites in a pathway?
gene metabolite functionnal annotation pathways
updated 4.1 years ago by ★ 3.9k • written 4.1 years ago by • 0
0
votes
0
replies
770
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plotting Signalling Pathways using SPIA
SPIA functional-analysis Pathways KEGG
4.1 years ago Assa Yeroslaviz ★ 1.5k
2
votes
2
replies
962
views
Help for Research Proposal
drug development pathways bioinformatics
updated 5.4 years ago by ★ 13k • written 5.4 years ago by • 0
0
votes
0
replies
954
views
Pathview input error: non-numeric variable in data frame
pathview kegg pathways package
5.6 years ago anc.informatics • 0
0
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0
replies
669
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Interactive metabolic pathway
pathways
5.7 years ago pritim2k6 • 0
0
votes
1
reply
981
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Protein pathway analysis -- Classify, organize, and cluster a list of proteins / discovering relations between a set of proteins and linking them to …
protein disease pathway analysis pathways
5.8 years ago ረ • 0
0
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0
replies
765
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Could not find pathways in HSA gmt
pathways gmt
5.9 years ago flalix • 0
0
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5
replies
5.7k
views
clusterProfiler: exclude pathways and add gene names to cnetplot
clusterprofiler pathway analysis pathways
updated 18 months ago by • 0 • written 5.9 years ago by ▴ 20
2
votes
4
replies
2.1k
views
ReactomePA / Reactome: Extraction of genes within a term
pathways reactomepa functional annotation
updated 5.9 years ago by ★ 1.2k • written 5.9 years ago by • 0
0
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0
replies
1.0k
views
Pathview web - unable to map transcriptomic data
pathways high-throughput transcriptomics nonmodel species
6.0 years ago monteiro • 0
0
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0
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981
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igraph PoTRA error
graph pathways igraph
6.1 years ago genomic8328 ▴ 10
0
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0
replies
1.2k
views
Two questions about pathifier package
pathways statistics microarray
6.3 years ago arronar • 0
1
vote
0
replies
1.4k
views
Job: Bioinformatician/Computational Biologist - Dublin City, Ireland
bioinformatician job computational biology genomes pathways machine learning Job
6.5 years ago bulfin.triona ▴ 10
0
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1
reply
1.9k
views
GAGE or GSEABase using expression data and pathway.gmt file for mouse
R GSEA GAGE pathways
updated 7.0 years ago by ★ 1.6k • written 7.0 years ago by • 0
0
votes
1
reply
2.0k
views
Pathview: visualization of data
pathways
updated 7.1 years ago by ★ 1.6k • written 7.1 years ago by • 0
0
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0
replies
1.2k
views
Pathway analysis for diffrential express gene
pathways gage annotation gostats
7.2 years ago avinash gupta ▴ 130
0
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0
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1.3k
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Job: PhD student positions in the areas of Bioinformatics, Computer Science and Biostatistics
bioinformatician job phd R pathways Job
7.4 years ago Frank Kramer ▴ 60
0
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6
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1.5k
views
Is reactome.db still updated?
reactome.db annotation pathways
7.5 years ago Guido Hooiveld ★ 3.9k
0
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4
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1.9k
views
EGSEA: how does the program generate the value for the up or down regulation of gene sets or pathways
pathways gsea egsea gage
updated 7.6 years ago by ▴ 40 • written 7.6 years ago by • 0
2
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0
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1.4k
views
Job: PhD student positions in the areas of Bioinformatics, Computer Science and Biostatistics
bioinformatician job job phd R pathways Job
7.6 years ago Frank Kramer ▴ 60
0
votes
2
replies
2.7k
views
WGCNA - Using real data for tutorial III
pathways wgcna network rna-seq
8.3 years ago hywel.williams • 0
2
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3
replies
4.8k
views
Pathview None of the genes or compounds mapped to the pathway
pathview pathways KEGG empty map
updated 2.8 years ago by • 0 • written 8.3 years ago by ▴ 20
2
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1
reply
1.1k
views
Problem with data not found using pathview package
pathways
updated 8.9 years ago by 65k • written 8.9 years ago by • 0
0
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2
replies
1.7k
views
retrieve kegg pathway abundances from gage analysis
gage pathways kegg
updated 9.1 years ago by ★ 1.6k • written 9.2 years ago by ▴ 100
0
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13
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5.8k
views
gage pathways enrichment analysis
gage pathways kegg
updated 9.4 years ago by ★ 1.6k • written 9.4 years ago by ▴ 100
8
votes
14
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3.8k
views
reactome.db is not updated?
genesetenrichment pathways reactome.db
updated 9.1 years ago by ▴ 150 • written 9.4 years ago by ★ 1.2k
0
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2
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4.4k
views
Pathway enrichment in bacteria metagenomes
pathways metagenomics
updated 9.4 years ago by ★ 1.6k • written 9.4 years ago by ▴ 100
1
vote
15
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3.4k
views
reactome.db: reactome IDs not mapped to pathway names
annotation pathways
updated 9.1 years ago by ▴ 150 • written 9.5 years ago by ★ 2.0k
0
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0
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2.3k
views
Gostats Hypergeometric tests for non model organisms Kegg pathway
Pathways GO Organism GOstats
9.6 years ago Luo Weijun ★ 1.6k
0
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0
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1.7k
views
Gostats Hypergeometric tests for non model organisms Kegg pathway
Pathways GO Organism GOstats
9.6 years ago Guest User ★ 13k
0
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0
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1.5k
views
Error in keggPathwayGraphs when updateCache = TRUE
Pathways ROntoTools Pathways ROntoTools
9.7 years ago Guest User ★ 13k
0
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0
replies
1.3k
views
ISMB talks: Pathview for pathway-based data integration and visualization
Pathways Visualization pathview Pathways Visualization pathview
9.8 years ago Luo Weijun ★ 1.6k
0
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0
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1.1k
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ECCB 2014
Sequencing Pathways Sequencing Pathways
9.9 years ago Wolfgang Raffelsberger ▴ 60
0
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0
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1.4k
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PostDoc opportunity
Pathways Network Pathways Network
9.9 years ago Guest User ★ 13k
0
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0
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1.0k
views
Thalassiosira pseudonana
Annotation Pathways GO Annotation Pathways GO
9.9 years ago nooshin ▴ 300
0
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0
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1.2k
views
graphite biopax conversion code?
Pathways graphite Pathways graphite
10.0 years ago Ryan C. Thompson ★ 7.9k
50 results • Page 1 of 1
Recent ...
Replies
Answer: List of Deprecated Packages for Bioc3.19 by shepherl 3.8k
singleCellTK has been fixed and will remain in Bioconductor
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
Yes, I'm working only with genes from terpenoids pathway (14 genes), so I can't use enrichGO? Can you recommend a package or something like…
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
Your awnser at Cannabis orgDb solve my problems using enrichGO by far. I'm underdegree biotechnology student, and I learning bioinformatic…
Comment: Trying to use enrichGO by Guido Hooiveld ★ 3.9k
It is indeed better. Anyway, did you notice this part in the output from `str(ortologos_filtrados)`: `$Gene.ID : int 115709372 115716460 …
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
I'm new here, but its better now?
Votes
Comment: Trying to use enrichGO
Answer: Cannabis OrgDb
DESeq2: How to find out how well the model fits the data?
Comment: DESeq2 - dispersion estimation when there is none
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
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