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DGEList
•
reset
0
votes
2
replies
673
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
18 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
1.3k
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
2.4k
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 7.2 years ago by
Gordon Smyth
53k • written 7.2 years ago by
Kevin
• 0
1
vote
4
replies
2.9k
views
edgeR/DGEList add assays to a DGEList like in SummarizedExperiment
edgeR
summarizedexperiment
dgelist
7.5 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
7.6 years ago
Larry K.
• 0
0
votes
1
reply
2.8k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 7.7 years ago by
Gordon Smyth
53k • written 7.7 years ago by
belmore
• 0
3
votes
3
replies
4.4k
views
Correct annotation of DGEList object from edgeR package regarding an RNA-Seq dataset
edger
DGEList
org.hs.eg.db
gene annotation
updated 4.1 years ago by
IIart.hubII
• 0 • written 7.9 years ago by
svlachavas
▴ 840
0
votes
2
replies
3.8k
views
Design of 'group' object in DGElist function
egder
dgelist
group
rnaseq
updated 8.0 years ago by
Aaron Lun
★ 29k • written 8.0 years ago by
fawazfebin
▴ 60
2
votes
4
replies
4.1k
views
Filtering DGEList object in edgeR
DGElist
filter
edgeR
updated 8.3 years ago by
Gordon Smyth
53k • written 8.3 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 9.2 years ago by
Steve Lianoglou
★ 13k • written 9.2 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
10.7 years ago
ccheung
• 0
14 results • Page
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Recent ...
Replies
Comment: "Watched Tags" are being erased rather than updated
by
shepherl
4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
Comment: "Watched Tags" are being erased rather than updated
by
shepherl
4.2k
we can investigate this issue. thank you for bringing it to our attention
Comment: deseq2 filter the low counts
by
Michael Love
43k
> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…
Comment: deseq2 filter the low counts
by
empty_mt
• 0
Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …
Comment: deseq2 filter the low counts
by
Michael Love
43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
Votes
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
Answer: Important: Bioconductor Release 3.22 Delayed
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