Showing : GOseq • reset
2
votes
3
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158
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package goseq seems to be not available on the latest version of R
goseq
updated 19 hours ago by 50k • written 3 days ago by ▴ 20
1
vote
2
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260
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supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
8 weeks ago thomas • 0
1
vote
4
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435
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goseq, warning and strange plot from nullp
goseq
3 months ago boczniak767 ▴ 720
0
votes
1
reply
606
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Downstream analysis with Differentially Expressed Genes
DESeq2 GO goseq FunctionalAnnotation
updated 18 months ago by ▴ 10 • written 18 months ago by • 0
0
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5
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2.0k
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 23 months ago by 65k • written 23 months ago by ▴ 10
0
votes
2
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841
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goseq: Wallenius Vs Fisher's Noncentral Hypergeometric Distribution
goseq
2.0 years ago Steve Pederson ▴ 170
1
vote
2
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827
views
Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
2.2 years ago • updated 2.1 years ago m.glymenaki • 0
0
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0
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752
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Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 2.2 years ago by 41k • written 2.2 years ago by • 0
1
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10
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2.5k
views
How to run Goseq for list of ensembl gene IDs
goseq
3.1 years ago Lucky • 0
1
vote
4
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1.4k
views
goseq package loading issues
DESeq2 goseq
3.2 years ago avinashi • 0
3
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9
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1.9k
views
Warning message when performing Gene Ontology analysis with goseq using hg38
goseq
updated 3.2 years ago by 65k • written 3.2 years ago by • 0
2
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3
replies
1.7k
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Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 3.3 years ago by 65k • written 3.3 years ago by ▴ 30
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
0
votes
1
reply
916
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non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 3.6 years ago by 65k • written 3.6 years ago by • 0
1
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2
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896
views
GOSeq analysis in rice
goseq
3.9 years ago • updated 3.7 years ago Jitendra ▴ 10
0
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2
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714
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Goseq_analysis related help
goseq
3.8 years ago kumararya563 • 0
0
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0
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478
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go seq related help, where I need to do mapping between go term and the protein -id
goseq
3.8 years ago kumararya563 • 0
3
votes
2
replies
1.1k
views
Goseq analysis related help.
annotation goseq
updated 3.9 years ago by ★ 13k • written 3.9 years ago by • 0
0
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0
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832
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How to identify differentially expressed genes from Reactome pathways enriched according to GOseq?
goseq go rna-seq
4.1 years ago hasse.bossenbroek • 0
4
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5
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1.8k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq installation
4.3 years ago gdalsky ▴ 40
0
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1
reply
2.2k
views
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology goseq go
4.6 years ago Raito92 ▴ 60
2
votes
6
replies
1.1k
views
Can't install GOSEQ (dependency problem) on CentOS 7!
goseq r package r
updated 4.6 years ago by ★ 6.5k • written 4.6 years ago by ▴ 60
1
vote
1
reply
1.3k
views
GOseq analysis with only upregulated or downregulated genes
goseq
updated 5.0 years ago by ▴ 310 • written 5.1 years ago by ▴ 160
2
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2
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1.1k
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Using GOseq for custom gene set enrichment test
goseq
updated 5.3 years ago by 50k • written 5.3 years ago by • 0
2
votes
2
replies
2.8k
views
How to access gene IDs associated with GO terms in GOSeq
GOseq ensemblid GO
updated 5.5 years ago by 65k • written 5.5 years ago by • 0
4
votes
10
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3.0k
views
Question: GoSeq: opposite pwf plot for up- and downregulated genes
goseq
8.5 years ago • updated 5.5 years ago Jakub ▴ 50
1
vote
3
replies
1.8k
views
goseq: Formatting category list for use with goseq
goseq category test
updated 5.6 years ago by 65k • written 5.6 years ago by ▴ 40
0
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0
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875
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
5.7 years ago zhu • 0
0
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1
reply
1.2k
views
GOseq output but strange warning message!
GOseq GO pwf goseq
5.7 years ago TB18 • 0
1
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1
reply
1.2k
views
Goseq output with too many GO terms per category
go goseq goterm category
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
3
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2
replies
1.0k
views
numInCat in goseq inconsistent with value obtained from org.Hs.eg.db
goseq
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
1
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9
replies
2.2k
views
Using goseq with unsupported organism
goseq
updated 5.8 years ago by 65k • written 5.8 years ago by • 0
0
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0
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939
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GOseq No Underrepresented Categories
goseq go enrichment
5.9 years ago mart1139 • 0
8
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10
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1.6k
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Genes listed in GO categories
goseq biomart
updated 5.9 years ago by 50k • written 5.9 years ago by • 0
0
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2
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883
views
goseq with hypergeometric method
goseq
updated 5.9 years ago by 50k • written 5.9 years ago by ▴ 40
0
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0
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1.3k
views
I finally solved my problem with installing "org.Hs.eg.db"!
goseq org.hs.eg.db
6.1 years ago nancyjwahl7 • 0
2
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6
replies
2.0k
views
Can Tximport average transcript length be used for GOSeq?
deseq2 tximport goseq
6.1 years ago casey.rimland ▴ 150
0
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6
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1.4k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq methylation ensembl ucsc limma
6.2 years ago dusan.petrovic • 0
0
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2
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3.7k
views
DESeq2 followed by goseq GO-analysis: Extracting DE genes of enriched GO category
deseq2 goseq rnaseq go enrichment differential gene expression
updated 6.2 years ago by 41k • written 6.2 years ago by • 0
0
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3
replies
1.2k
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What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
limma limma-voom goseq
updated 6.3 years ago by 50k • written 6.3 years ago by • 0
0
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1
reply
2.6k
views
installation of package 'goseq' had non-zero exit status
goseq installation
updated 6.4 years ago by 25k • written 6.4 years ago by • 0
0
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1
reply
1.7k
views
PANTHER.db- external pointer error
goseq pantherdb pathway analysis gene ontology
updated 6.4 years ago by 65k • written 6.4 years ago by ▴ 10
1
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2
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2.9k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq gene ontology
updated 6.5 years ago by 65k • written 6.5 years ago by • 0
0
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1
reply
1.2k
views
Error: subscript out of bounds when using ucscGenomes() and supportedGenomes() functions in goseq and rtracklayer packages respctively
goseq rtracklayer
6.6 years ago mgdrnl • 0
2
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3
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1.7k
views
GOseq error on running nullp
goseq GO term
updated 6.6 years ago by 50k • written 6.6 years ago by • 0
0
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1
reply
2.0k
views
GO.db won't install for using goseq package
GO.db goseq package installation error
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
0
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2
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1.6k
views
bias.data vector must have the same length as DEgenes vector!
edger goseq
updated 6.6 years ago by ★ 28k • written 6.6 years ago by ▴ 10
0
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0
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1.2k
views
gene length file for GOseq
goseq
6.7 years ago mictadlo ▴ 10
2
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2
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1.4k
views
Error in normSplitFactor(f, x)
GenomicRanges rtracklayer goseq
updated 6.7 years ago by ★ 11k • written 6.7 years ago by ▴ 10
0
votes
3
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1.5k
views
goseq after edgeR
edger goseq
updated 6.7 years ago by ★ 28k • written 6.7 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
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Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Hervé Pagès 16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea() by James W. MacDonald 65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea() by Chris • 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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