Showing : GOseq • reset
0
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315
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GOseq Probability Weight Function bad fit
goseq
written 11 weeks ago by • 0
0
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1
reply
806
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News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
9 months ago info ▴ 10
5
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9
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2.9k
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Inconsistent nullp and goseq enrichment results across operating systems
goseq
written 17 months ago by • 0
2
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3
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1.3k
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package goseq seems to be not available on the latest version of R
goseq
updated 19 months ago by 53k • written 19 months ago by ▴ 20
1
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2
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787
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supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
21 months ago thomas • 0
1
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4
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1.3k
views
goseq, warning and strange plot from nullp
goseq
22 months ago boczniak767 ▴ 740
0
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1
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1.1k
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Downstream analysis with Differentially Expressed Genes
DESeq2 GO goseq FunctionalAnnotation
updated 3.1 years ago by ▴ 10 • written 3.1 years ago by • 0
0
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5
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3.6k
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 3.5 years ago by 68k • written 3.5 years ago by ▴ 30
0
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2
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1.5k
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goseq: Wallenius Vs Fisher's Noncentral Hypergeometric Distribution
goseq
3.6 years ago Steve Pederson ▴ 170
1
vote
2
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1.4k
views
Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
3.8 years ago • updated 3.7 years ago m.glymenaki • 0
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0
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1.2k
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Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 3.8 years ago by 43k • written 3.8 years ago by • 0
1
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10
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3.9k
views
How to run Goseq for list of ensembl gene IDs
goseq
4.7 years ago Lucky • 0
1
vote
4
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2.2k
views
goseq package loading issues
DESeq2 goseq
4.8 years ago avinashi • 0
3
votes
9
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2.8k
views
Warning message when performing Gene Ontology analysis with goseq using hg38
goseq
updated 4.8 years ago by 68k • written 4.8 years ago by • 0
2
votes
3
replies
2.7k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 4.9 years ago by 68k • written 4.9 years ago by ▴ 30
2
votes
2
replies
1.7k
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Pathway analysis and GO terms analysis with goseq
KEGG Pathways GO goseq
updated 5.0 years ago by 68k • written 5.0 years ago by • 0
0
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1
reply
1.4k
views
non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 5.2 years ago by 68k • written 5.2 years ago by • 0
1
vote
2
replies
1.4k
views
GOSeq analysis in rice
goseq
5.5 years ago • updated 5.3 years ago Jitendra ▴ 10
0
votes
2
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1.2k
views
Goseq_analysis related help
goseq
5.5 years ago • updated 5.4 years ago kumararya563 • 0
0
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0
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773
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go seq related help, where I need to do mapping between go term and the protein -id
goseq
5.5 years ago • updated 5.4 years ago kumararya563 • 0
3
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2
replies
1.6k
views
Goseq analysis related help.
annotation goseq
updated 5.5 years ago by ★ 13k • written 5.5 years ago by • 0
0
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0
replies
1.4k
views
How to identify differentially expressed genes from Reactome pathways enriched according to GOseq?
goseq go rna-seq
5.7 years ago hasse.bossenbroek • 0
4
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5
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2.6k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq installation
6.0 years ago gdalsky ▴ 40
0
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1
reply
2.9k
views
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology goseq go
6.2 years ago Raito92 ▴ 60
2
votes
6
replies
1.7k
views
Can't install GOSEQ (dependency problem) on CentOS 7!
goseq r package r
updated 6.2 years ago by ★ 6.6k • written 6.2 years ago by ▴ 60
2
votes
1
reply
2.5k
views
GOseq analysis with only upregulated or downregulated genes
goseq
updated 6.7 years ago by ▴ 320 • written 6.7 years ago by ▴ 180
2
votes
2
replies
1.6k
views
Using GOseq for custom gene set enrichment test
goseq
updated 6.9 years ago by 53k • written 6.9 years ago by • 0
2
votes
2
replies
3.9k
views
How to access gene IDs associated with GO terms in GOSeq
GOseq ensemblid GO
updated 7.1 years ago by 68k • written 7.1 years ago by • 0
4
votes
10
replies
4.0k
views
Question: GoSeq: opposite pwf plot for up- and downregulated genes
goseq
10.1 years ago • updated 7.1 years ago Jakub ▴ 50
1
vote
3
replies
2.5k
views
goseq: Formatting category list for use with goseq
goseq category test
updated 7.2 years ago by 68k • written 7.2 years ago by ▴ 40
0
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0
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1.2k
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
7.3 years ago zhu • 0
0
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1
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1.7k
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GOseq output but strange warning message!
GOseq GO pwf goseq
7.3 years ago TB18 • 0
1
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1
reply
1.8k
views
Goseq output with too many GO terms per category
go goseq goterm category
updated 7.3 years ago by 53k • written 7.3 years ago by • 0
3
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2
replies
1.5k
views
numInCat in goseq inconsistent with value obtained from org.Hs.eg.db
goseq
updated 7.3 years ago by 68k • written 7.4 years ago by • 0
1
vote
9
replies
3.1k
views
Using goseq with unsupported organism
goseq
updated 7.4 years ago by 68k • written 7.4 years ago by • 0
0
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0
replies
1.3k
views
GOseq No Underrepresented Categories
goseq go enrichment
7.5 years ago mart1139 • 0
8
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10
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2.4k
views
Genes listed in GO categories
goseq biomart
updated 7.5 years ago by 53k • written 7.5 years ago by • 0
0
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2
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1.3k
views
goseq with hypergeometric method
goseq
updated 7.5 years ago by 53k • written 7.5 years ago by ▴ 40
0
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0
replies
1.8k
views
I finally solved my problem with installing "org.Hs.eg.db"!
goseq org.hs.eg.db
7.7 years ago nancyjwahl7 • 0
2
votes
6
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2.7k
views
Can Tximport average transcript length be used for GOSeq?
deseq2 tximport goseq
7.8 years ago casey.rimland ▴ 170
0
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6
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2.2k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq methylation ensembl ucsc limma
7.8 years ago dusan.petrovic • 0
0
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2
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4.5k
views
DESeq2 followed by goseq GO-analysis: Extracting DE genes of enriched GO category
deseq2 goseq rnaseq go enrichment differential gene expression
updated 7.8 years ago by 43k • written 7.8 years ago by • 0
0
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3
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1.7k
views
What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
limma limma-voom goseq
updated 7.9 years ago by 53k • written 7.9 years ago by • 0
0
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1
reply
3.1k
views
installation of package 'goseq' had non-zero exit status
goseq installation
updated 8.0 years ago by 25k • written 8.0 years ago by • 0
0
votes
1
reply
2.2k
views
PANTHER.db- external pointer error
goseq pantherdb pathway analysis gene ontology
updated 8.0 years ago by 68k • written 8.0 years ago by ▴ 10
1
vote
2
replies
3.6k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq gene ontology
updated 8.1 years ago by 68k • written 8.1 years ago by • 0
0
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1
reply
1.6k
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Error: subscript out of bounds when using ucscGenomes() and supportedGenomes() functions in goseq and rtracklayer packages respctively
goseq rtracklayer
8.2 years ago mgdrnl • 0
2
votes
3
replies
2.3k
views
GOseq error on running nullp
goseq GO term
updated 8.2 years ago by 53k • written 8.2 years ago by • 0
0
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1
reply
2.4k
views
GO.db won't install for using goseq package
GO.db goseq package installation error
updated 8.3 years ago by 25k • written 8.3 years ago by • 0
0
votes
2
replies
2.1k
views
bias.data vector must have the same length as DEgenes vector!
edger goseq
updated 8.3 years ago by ★ 29k • written 8.3 years ago by ▴ 10
162 results • Page 1 of 4
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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