Showing : geneontology • reset
2
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clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 8 weeks ago by 41k • written 8 weeks ago by • 0
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3
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1.6k
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Gene ontology enrichment analysis
rnaseq rnaseqGene geneontology
updated 17 months ago by 65k • written 17 months ago by • 0
1
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4
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795
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RNA-seq analysis between a wildtype vs a double microRNA kockout mouse brain
microRNA gene RNASeqRData edgeR geneontology
18 months ago faiza • 0
0
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0
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516
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Gene Ontology on Streptococcus Pneumoniae genes sets
GO GeneOntology LocusIDtogeneIDconversion
19 months ago BioinFo.X • 0
1
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3
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1.6k
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Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 22 months ago by 65k • written 22 months ago by ▴ 60
1
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2
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895
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Getting list of genes enriched in each of Biological process terms
GOstats Go.db GeneOntology
3.1 years ago MOHAMMAD • 0
2
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1
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919
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Geno Ontology Analysis using gene symbol
GO.db Annotation Clusterprofile GeneOntology
updated 3.1 years ago by ▴ 780 • written 3.1 years ago by • 0
1
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3
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1.3k
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topGO enrichment analysis, ontology selection.
topGO enrichmentanalysis geneontology
updated 3.2 years ago by ▴ 730 • written 3.2 years ago by • 0
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6
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7.1k
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question on GO analysis using clusterProfiler
clusterprofiler geneontology
updated 6.5 years ago by ▴ 160 • written 6.5 years ago by • 0
0
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1
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976
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GOSemSim bioconductor package
geneontology R go semantic similarity
updated 7.3 years ago by ★ 6.8k • written 7.3 years ago by • 0
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Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123 by Gordon Smyth 50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! I'll review my code from top to bottom.
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Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
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