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gofuncr
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question about the refined outputs from GOfuncR package
GOfuncR
2.5 years ago • updated 22 months ago
capricygcapricyg
▴ 10
0
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2
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821
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Graphically Represent p-values from plot_annot_score in package GOfuncR
GOfuncR
plot_anno_scores
plot_stats
updated 5.6 years ago by
steffi_grote
• 0 • written 5.6 years ago by
rbenel
▴ 40
0
votes
1
reply
666
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I want to convert the go enrichment result to a data frame (tidy data)with two column which one is the gene symbol and the other is go term. Any one…
GO.db
GOfuncR
GO
GOSim
goProfiles
updated 18 months ago by
Basti
▴ 770 • written 18 months ago by
yeluo
• 0
1
vote
3
replies
605
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GOfuncR fails to build on Mac OS
GOfuncR
updated 10 weeks ago by
Steffi Grote
▴ 10 • written 7 months ago by
Marek Gierlinski
▴ 30
0
votes
1
reply
502
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Gene enrichment analysis
analysis
R
GOfuncR
updated 10 months ago by
Lluís Revilla Sancho
▴ 730 • written 10 months ago by
Eliza
• 0
5 results • Page
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Comment: Which input file is used for DGEList in EgdeR?
by
Michael Love
41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Michael Love
41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts
by
Michael Love
41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…
Comment: Estimating Cell Counts for EPIC V2 array data
by
normawiedman059
• 0
0 [103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14 [106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20 [109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…
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Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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