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DGElist
•
reset
0
votes
2
replies
364
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
6 months ago
prity6459
• 0
2
votes
2
replies
773
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
2.0k
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
2.4k
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 3.1 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
14 results • Page
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Recent ...
Replies
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
by
Michael Love
42k
That is the rows that did converge.
Answer: Is my time course analysis with DESeq2 valid?
by
Michael Love
42k
For choosing the correct statistical design, I recommend working with a local statistician or someone familiar with linear models in R. I h…
Answer: WGCNA coupled with differential expression analysis: question about baseline mod
by
kaidaneil52
• 0
Using WGCNA (Weighted Gene Co-expression Network Analysis) alongside differential expression analysis can enhance insights into gene regula…
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
by
Mike Smith
★ 6.6k
Unfortunately I received this update from the Ensembl Helpdesk on 2024-11-14: > Unfortunately, the fix is taking longer than expected and …
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
by
daniela.gutierrezandrade
• 0
Hello, I am running into a similar issue. After setting the design, at the beginning of the analysis I filter rows with low counts. d…
Votes
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
biomaRt rnorvegicus_gene_ensembl not available anymore
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