Showing : goseq • reset
5
votes
9
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2.1k
views
Inconsistent nullp and goseq enrichment results across operating systems
goseq
written 6 months ago by • 0
2
votes
3
replies
946
views
package goseq seems to be not available on the latest version of R
goseq
updated 8 months ago by 52k • written 9 months ago by ▴ 20
1
vote
2
replies
571
views
supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
10 months ago thomas • 0
1
vote
4
replies
845
views
goseq, warning and strange plot from nullp
goseq
12 months ago boczniak767 ▴ 740
0
votes
1
reply
828
views
Downstream analysis with Differentially Expressed Genes
DESeq2 GO goseq FunctionalAnnotation
updated 2.2 years ago by ▴ 10 • written 2.2 years ago by • 0
0
votes
5
replies
2.9k
views
GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 2.7 years ago by 67k • written 2.7 years ago by ▴ 30
0
votes
2
replies
1.1k
views
goseq: Wallenius Vs Fisher's Noncentral Hypergeometric Distribution
goseq
2.8 years ago Steve Pederson ▴ 170
1
vote
2
replies
1.1k
views
Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
2.9 years ago • updated 2.8 years ago m.glymenaki • 0
0
votes
0
replies
985
views
Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 2.9 years ago by 43k • written 2.9 years ago by • 0
1
vote
10
replies
3.1k
views
How to run Goseq for list of ensembl gene IDs
goseq
3.8 years ago Lucky • 0
1
vote
4
replies
1.9k
views
goseq package loading issues
DESeq2 goseq
3.9 years ago avinashi • 0
3
votes
9
replies
2.4k
views
Warning message when performing Gene Ontology analysis with goseq using hg38
goseq
updated 3.9 years ago by 67k • written 4.0 years ago by • 0
2
votes
3
replies
2.2k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 4.0 years ago by 67k • written 4.0 years ago by ▴ 30
2
votes
2
replies
1.4k
views
Pathway analysis and GO terms analysis with goseq
KEGG Pathways GO goseq
updated 4.2 years ago by 67k • written 4.2 years ago by • 0
0
votes
1
reply
1.2k
views
non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 4.3 years ago by 67k • written 4.3 years ago by • 0
1
vote
2
replies
1.1k
views
GOSeq analysis in rice
goseq
4.6 years ago • updated 4.5 years ago Jitendra ▴ 10
0
votes
2
replies
886
views
Goseq_analysis related help
goseq
4.6 years ago kumararya563 • 0
0
votes
0
replies
612
views
go seq related help, where I need to do mapping between go term and the protein -id
goseq
4.6 years ago kumararya563 • 0
3
votes
2
replies
1.4k
views
Goseq analysis related help.
annotation goseq
updated 4.6 years ago by ★ 13k • written 4.6 years ago by • 0
0
votes
0
replies
1.0k
views
How to identify differentially expressed genes from Reactome pathways enriched according to GOseq?
goseq go rna-seq
4.8 years ago hasse.bossenbroek • 0
4
votes
5
replies
2.2k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq installation
5.1 years ago gdalsky ▴ 40
0
votes
1
reply
2.5k
views
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology goseq go
5.4 years ago Raito92 ▴ 60
2
votes
6
replies
1.4k
views
Can't install GOSEQ (dependency problem) on CentOS 7!
goseq r package r
updated 5.4 years ago by ★ 6.6k • written 5.4 years ago by ▴ 60
2
votes
1
reply
1.9k
views
GOseq analysis with only upregulated or downregulated genes
goseq
updated 5.8 years ago by ▴ 320 • written 5.8 years ago by ▴ 160
2
votes
2
replies
1.3k
views
Using GOseq for custom gene set enrichment test
goseq
updated 6.0 years ago by 52k • written 6.0 years ago by • 0
2
votes
2
replies
3.5k
views
How to access gene IDs associated with GO terms in GOSeq
GOseq ensemblid GO
updated 6.2 years ago by 67k • written 6.2 years ago by • 0
4
votes
10
replies
3.5k
views
Question: GoSeq: opposite pwf plot for up- and downregulated genes
goseq
9.3 years ago • updated 6.2 years ago Jakub ▴ 50
1
vote
3
replies
2.2k
views
goseq: Formatting category list for use with goseq
goseq category test
updated 6.4 years ago by 67k • written 6.4 years ago by ▴ 40
0
votes
0
replies
1.0k
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
6.4 years ago zhu • 0
0
votes
1
reply
1.4k
views
GOseq output but strange warning message!
GOseq GO pwf goseq
6.4 years ago TB18 • 0
1
vote
1
reply
1.5k
views
Goseq output with too many GO terms per category
go goseq goterm category
updated 6.5 years ago by 52k • written 6.5 years ago by • 0
3
votes
2
replies
1.3k
views
numInCat in goseq inconsistent with value obtained from org.Hs.eg.db
goseq
updated 6.5 years ago by 67k • written 6.5 years ago by • 0
1
vote
9
replies
2.6k
views
Using goseq with unsupported organism
goseq
updated 6.5 years ago by 67k • written 6.5 years ago by • 0
0
votes
0
replies
1.1k
views
GOseq No Underrepresented Categories
goseq go enrichment
6.6 years ago mart1139 • 0
8
votes
10
replies
2.0k
views
Genes listed in GO categories
goseq biomart
updated 6.6 years ago by 52k • written 6.6 years ago by • 0
0
votes
2
replies
1.1k
views
goseq with hypergeometric method
goseq
updated 6.7 years ago by 52k • written 6.7 years ago by ▴ 40
0
votes
0
replies
1.5k
views
I finally solved my problem with installing "org.Hs.eg.db"!
goseq org.hs.eg.db
6.8 years ago nancyjwahl7 • 0
2
votes
6
replies
2.3k
views
Can Tximport average transcript length be used for GOSeq?
deseq2 tximport goseq
6.9 years ago casey.rimland ▴ 170
0
votes
6
replies
1.8k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq methylation ensembl ucsc limma
6.9 years ago dusan.petrovic • 0
0
votes
2
replies
4.1k
views
DESeq2 followed by goseq GO-analysis: Extracting DE genes of enriched GO category
deseq2 goseq rnaseq go enrichment differential gene expression
updated 7.0 years ago by 43k • written 7.0 years ago by • 0
0
votes
3
replies
1.5k
views
What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
limma limma-voom goseq
updated 7.0 years ago by 52k • written 7.0 years ago by • 0
0
votes
1
reply
2.9k
views
installation of package 'goseq' had non-zero exit status
goseq installation
updated 7.1 years ago by 25k • written 7.1 years ago by • 0
0
votes
1
reply
1.9k
views
PANTHER.db- external pointer error
goseq pantherdb pathway analysis gene ontology
updated 7.2 years ago by 67k • written 7.2 years ago by ▴ 10
1
vote
2
replies
3.3k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq gene ontology
updated 7.3 years ago by 67k • written 7.3 years ago by • 0
0
votes
1
reply
1.4k
views
Error: subscript out of bounds when using ucscGenomes() and supportedGenomes() functions in goseq and rtracklayer packages respctively
goseq rtracklayer
7.3 years ago mgdrnl • 0
2
votes
3
replies
2.1k
views
GOseq error on running nullp
goseq GO term
updated 7.3 years ago by 52k • written 7.3 years ago by • 0
0
votes
1
reply
2.2k
views
GO.db won't install for using goseq package
GO.db goseq package installation error
updated 7.4 years ago by 25k • written 7.4 years ago by • 0
0
votes
2
replies
1.8k
views
bias.data vector must have the same length as DEgenes vector!
edger goseq
updated 7.4 years ago by ★ 28k • written 7.4 years ago by ▴ 10
0
votes
0
replies
1.5k
views
gene length file for GOseq
goseq
7.4 years ago mictadlo ▴ 10
2
votes
2
replies
1.7k
views
Error in normSplitFactor(f, x)
GenomicRanges rtracklayer goseq
updated 7.4 years ago by ★ 11k • written 7.4 years ago by ▴ 10
50 results • Page 1 of 1
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Comment: Sample-specific methylation values using QSEA by User3088 • 0
Thanks Simon. I got the sample-specific methylation values by using '**samples=getSampleNames**' ``` result=makeTable(qs=prad_QSEAset, glm=…
Comment: input for singR function by iamin053 • 0
Hi Paria, I'm wondering if you were able to get an answer on this please. I would greatly appreciate any comments!
Comment: build samplesheet and plot profile by yf • 0
![enter image description here][1] [1]: /media/images/8ea93bd0-bc90-443d-a332-4701f54a
Answer: I am having issues with bowtie2_build by James W. MacDonald 67k
Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…
Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k
Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…
Votes
Answer: Is it always preferable to recount library sizes of DGEList object in edgeR afte
A: Doubt about the "zero expression" genes or genes with no reads at all in the co
Answer: Unable to install nloptr
Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?
C: How does edgeR cpm function calculate log(CPM) values?
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