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dgelist
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0
votes
2
replies
370
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How to make DGEList and design matrix by edgeR package
DGEList
edgeR
7 months ago
prity6459
• 0
2
votes
2
replies
777
views
Inccorect group number in DGEList
edgeR
Bioconductor
Dseq2
dgelist
updated 23 months ago by
Gordon Smyth
51k • written 23 months ago by
Fiona
• 0
1
vote
1
reply
1.0k
views
Optimal edgeR design for a single-factor experiment
factors
edgeR
setup
DGELIst
updated 3.5 years ago by
Gordon Smyth
51k • written 3.5 years ago by
Alex
• 0
0
votes
2
replies
2.1k
views
create DGElist Object
edger
DGElist
updated 5.6 years ago by
Gordon Smyth
51k • written 5.6 years ago by
naser.sadri
• 0
0
votes
4
replies
1.9k
views
Error in RnaSeqGeneEdgeRQL
dgelist
edger
RnaSeqGeneEdgeRQL
updated 6.3 years ago by
Gordon Smyth
51k • written 6.3 years ago by
Kevin
• 0
1
vote
4
replies
2.4k
views
edgeR/DGEList add assays to a DGEList like in SummarizedExperiment
edgeR
summarizedexperiment
dgelist
6.6 years ago
aljoscha.leusmann
• 0
0
votes
0
replies
1.1k
views
Using log2FC distance matrix in Boot.Phylo to create bootstrapped trees
tree
bootstrap
dgelist
plotmds
6.7 years ago
Larry K.
• 0
0
votes
1
reply
2.5k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 6.7 years ago by
Gordon Smyth
51k • written 6.7 years ago by
belmore
• 0
3
votes
3
replies
4.0k
views
Correct annotation of DGEList object from edgeR package regarding an RNA-Seq dataset
edger
DGEList
org.hs.eg.db
gene annotation
updated 3.2 years ago by
IIart.hubII
• 0 • written 7.0 years ago by
svlachavas
▴ 830
0
votes
2
replies
3.4k
views
Design of 'group' object in DGElist function
egder
dgelist
group
rnaseq
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
fawazfebin
▴ 60
2
votes
4
replies
3.6k
views
Filtering DGEList object in edgeR
DGElist
filter
edgeR
updated 7.4 years ago by
Gordon Smyth
51k • written 7.4 years ago by
alakatos
▴ 130
4
votes
6
replies
2.8k
views
How to carry out differential gene expression starting with a table of TMM normalised values without access to the raw reads?
edger
raw reads
TMM normalised values
DGEList
differential gene expression
updated 8.3 years ago by
Steve Lianoglou
★ 13k • written 8.3 years ago by
benedict.ng
▴ 30
3
votes
7
replies
7.1k
views
edgeR subsetting DGEList by column/sample
edger
subsetting
dgelist
updated 8.3 years ago by
Gordon Smyth
51k • written 8.3 years ago by
mnaymik
▴ 10
1
vote
4
replies
21k
views
edgeR: non-unique values when setting 'row.names' - but the row names are unique!!!
edgeR
row.names
DGEList
9.8 years ago
ccheung
• 0
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Answer: HilBertVis install error
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James W. MacDonald
67k
It appears you have compiler flags set that preclude you from compiling (-Werror=format-security). If I install `HilbertVis` on my work box…
Comment: Identical samples after deseq2 batch effect removal
by
maripane
• 0
Thanks Michael for quick reply. Actually, I also questioned this but later i saw this issue happens within another cluster and different c…
Answer: Identical samples after deseq2 batch effect removal
by
Michael Love
42k
> 2 of my treatment samples have identical normalised gene expression for all genes. This sounds like a quantification / sample labeling…
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I'm sorry I missed the first post! Yes, it is easy to agglomerate ranks in curatedMetagenomicData datasets. See the example in the vignette…
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by
Denise
• 0
This makes a lot of sense, thank you very much!
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