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glimma
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1.9k
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problem installing the Glimma package
glimma
7.0 years ago
omran.allatif
• 0
5
votes
4
replies
1.8k
views
Glimma Interactive plots for RNAseq
Glimma
R markdown
rnaseq
7.1 years ago
Aurora
▴ 20
7
votes
6
replies
1.8k
views
BiocStyle::html_document does not render Glimma plots
Glimma
BiocStyle
updated 2.7 years ago by
Mike Smith
★ 6.6k • written 2.7 years ago by
neilzhao
▴ 30
0
votes
0
replies
1.3k
views
Glimma: Error: Length of groups must be equal to the number of columns in counts
Glimma
RNASeq
3.2 years ago
Jonas
• 0
2
votes
2
replies
1.3k
views
What to do when a bug is found in a BioConductor package (Glimma)
glimma
software error
updated 5.6 years ago by
Gordon Smyth
52k • written 5.6 years ago by
Sam
▴ 10
1
vote
2
replies
1.3k
views
bug in Glimma - anno can't have T/F
Glimma
8.7 years ago
Jenny Drnevich
★ 2.0k
0
votes
2
replies
1.2k
views
glimmaMA() produces blank plot if have annot column named "gene"
Glimma
updated 3.0 years ago by
Shian Su
▴ 40 • written 3.8 years ago by
Jenny Drnevich
★ 2.0k
1
vote
1
reply
1.1k
views
Extracting the tophits from limma Volcanoplot and issue with geneIDs
limma
edgeR
Glimma
updated 2.2 years ago by
Gordon Smyth
52k • written 2.2 years ago by
Mohammad
• 0
0
votes
1
reply
1.0k
views
Why does the Glimma package require R >= 3.4.0 ?
glimma
updated 7.0 years ago by
Shian Su
▴ 40 • written 7.0 years ago by
gil.hornung
• 0
0
votes
0
replies
722
views
Complex design in DESeq2 doesn't seem to be supported in Glimma
limma
Glimma
RNASeq
DESeq2
3.2 years ago
Jonas
• 0
10 results • Page
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Answer: Use of org.Rn.eg.db with GRCr8 reference genome
by
James W. MacDonald
68k
You've got it backwards. It should be ``` adult_res_df$symbol <- mapIds(org.Rn.eg.db, keys = rownames(adult_res_df), column = "ENSEMBL"…
Comment: DESeq2 swap ensembl gene id rownames with gene symbol column
by
Erika
• 0
Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…
Answer: Clarification on GOALL / GO2ALLORFs mapping
by
James W. MacDonald
68k
It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…
Comment: Can't post a question?
by
DavideSant
• 0
Thank you, this was super useful!
Comment: Error in retrieving clinical data
by
silickas
• 0
Thank you for the reply. I will try to do that next time. This time instead, I used the GenomicDataCommons package to download clinical dat…
Votes
Comment: Can't post a question?
Answer: Limma - Complex 2-way multi-level contrast with paired samples
Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
Answer: Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malf
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