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DGEList
•
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0
votes
2
replies
714
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
19 months ago
prity6459
• 0
2
votes
2
replies
1.0k
views
Inccorect group number in DGEList
edgeR
Bioconductor
Dseq2
dgelist
updated 2.9 years ago by
Gordon Smyth
53k • written 2.9 years ago by
Fiona
• 0
1
vote
1
reply
1.4k
views
Optimal edgeR design for a single-factor experiment
factors
edgeR
setup
DGELIst
updated 4.5 years ago by
Gordon Smyth
53k • written 4.5 years ago by
Alex
• 0
0
votes
2
replies
2.5k
views
create DGElist Object
edger
DGElist
updated 6.6 years ago by
Gordon Smyth
53k • written 6.6 years ago by
naser.sadri
• 0
0
votes
4
replies
2.2k
views
Error in RnaSeqGeneEdgeRQL
dgelist
edger
RnaSeqGeneEdgeRQL
updated 7.3 years ago by
Gordon Smyth
53k • written 7.3 years ago by
Kevin
• 0
1
vote
4
replies
3.0k
views
edgeR/DGEList add assays to a DGEList like in SummarizedExperiment
edgeR
summarizedexperiment
dgelist
7.6 years ago
aljoscha.leusmann
• 0
0
votes
0
replies
1.3k
views
Using log2FC distance matrix in Boot.Phylo to create bootstrapped trees
tree
bootstrap
dgelist
plotmds
7.7 years ago
Larry K.
• 0
0
votes
1
reply
2.8k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 7.8 years ago by
Gordon Smyth
53k • written 7.8 years ago by
belmore
• 0
3
votes
3
replies
4.5k
views
Correct annotation of DGEList object from edgeR package regarding an RNA-Seq dataset
edger
DGEList
org.hs.eg.db
gene annotation
updated 4.2 years ago by
IIart.hubII
• 0 • written 8.0 years ago by
svlachavas
▴ 840
0
votes
2
replies
3.8k
views
Design of 'group' object in DGElist function
egder
dgelist
group
rnaseq
updated 8.1 years ago by
Aaron Lun
★ 29k • written 8.1 years ago by
fawazfebin
▴ 60
2
votes
4
replies
4.2k
views
Filtering DGEList object in edgeR
DGElist
filter
edgeR
updated 8.4 years ago by
Gordon Smyth
53k • written 8.4 years ago by
alakatos
▴ 130
4
votes
6
replies
3.3k
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 9.3 years ago by
Steve Lianoglou
★ 13k • written 9.3 years ago by
benedict.ng
▴ 30
3
votes
7
replies
7.7k
views
edgeR subsetting DGEList by column/sample
edger
subsetting
dgelist
updated 9.3 years ago by
Gordon Smyth
53k • written 9.3 years ago by
mnaymik
▴ 10
1
vote
4
replies
22k
views
edgeR: non-unique values when setting 'row.names' - but the row names are unique!!!
edgeR
row.names
DGEList
10.8 years ago
ccheung
• 0
14 results • Page
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Comment: limpa - drivers for unusually high standard error?
by
Julia Broadbent
• 0
Apologies for not being clearer in my initial question, but thank you for answering regardless! The large SE values I am looking at appear …
Answer: limpa - drivers for unusually high standard error?
by
Gordon Smyth
53k
Hi Julia, I am going to assume that you mean standard errors (SEs) returned by `dpcQuant()`, because later stages in the limpa pipeline do…
Comment: gene Set with high AUC score but no cells assigned to cell type
by
e.j.aaw.g.erm
• 0
It sounds like AUCell is struggling with thresholding because your cDC2 gene set doesn t show a clear bimodal distribution. While a high AU…
Comment: featureCounts -L: high unassigned:mapq fraction
by
insurancetaaddddaxrealty
• 0
FeatureCounts can behave differently with ONT cDNA BAM files due to long read splice patterns, and many users compare settings or presets m…
Comment: A problem occurs when running the monocle2
by
e.j.aaw.g.erm
• 0
For gamers facing technical issues or errors in complex scripts, the Redz Hub script download provides a reliable tool to optimize performa…
Votes
Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Identifying differentially expressed genes in individual samples from a large co
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