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dgelist
•
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0
votes
2
replies
443
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
9 months ago
prity6459
• 0
2
votes
2
replies
824
views
Inccorect group number in DGEList
edgeR
Bioconductor
Dseq2
dgelist
updated 2.1 years ago by
Gordon Smyth
52k • written 2.1 years ago by
Fiona
• 0
1
vote
1
reply
1.1k
views
Optimal edgeR design for a single-factor experiment
factors
edgeR
setup
DGELIst
updated 3.7 years ago by
Gordon Smyth
52k • written 3.7 years ago by
Alex
• 0
0
votes
2
replies
2.2k
views
create DGElist Object
edger
DGElist
updated 5.9 years ago by
Gordon Smyth
52k • written 5.9 years ago by
naser.sadri
• 0
0
votes
4
replies
2.0k
views
Error in RnaSeqGeneEdgeRQL
dgelist
edger
RnaSeqGeneEdgeRQL
updated 6.5 years ago by
Gordon Smyth
52k • written 6.5 years ago by
Kevin
• 0
1
vote
4
replies
2.5k
views
edgeR/DGEList add assays to a DGEList like in SummarizedExperiment
edgeR
summarizedexperiment
dgelist
6.8 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
6.9 years ago
Larry K.
• 0
0
votes
1
reply
2.5k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger
dgelist
NA
egsea
updated 7.0 years ago by
Gordon Smyth
52k • written 7.0 years ago by
belmore
• 0
3
votes
3
replies
4.1k
views
Correct annotation of DGEList object from edgeR package regarding an RNA-Seq dataset
edger
DGEList
org.hs.eg.db
gene annotation
updated 3.4 years ago by
IIart.hubII
• 0 • written 7.2 years ago by
svlachavas
▴ 840
0
votes
2
replies
3.5k
views
Design of 'group' object in DGElist function
egder
dgelist
group
rnaseq
updated 7.3 years ago by
Aaron Lun
★ 28k • written 7.3 years ago by
fawazfebin
▴ 60
2
votes
4
replies
3.7k
views
Filtering DGEList object in edgeR
DGElist
filter
edgeR
updated 7.6 years ago by
Gordon Smyth
52k • written 7.6 years ago by
alakatos
▴ 130
4
votes
6
replies
2.9k
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 8.5 years ago by
Steve Lianoglou
★ 13k • written 8.5 years ago by
benedict.ng
▴ 30
3
votes
7
replies
7.2k
views
edgeR subsetting DGEList by column/sample
edger
subsetting
dgelist
updated 8.6 years ago by
Gordon Smyth
52k • written 8.6 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
10.0 years ago
ccheung
• 0
14 results • Page
1 of 1
Recent ...
Replies
Comment: WGCNA coupled with differential expression analysis: question about baseline mod
by
hetaf16210
• 0
@[slope][1] If feasible, consider conducting both analyses. Start with a pooled analysis to identify broad patterns, then conduct separate …
Comment: DESeq2 adujsted p-value cutoff seemingly not working
by
980linnet
• 0
Stuck on DESeq2 with alpha=.05 for padj cutoff. Can't seem to get the differential expression analysis to stick the landing - it's like try…
Comment: internal error in trio library when trying to use lfmm() in LEA package
by
PW
• 0
>ERROR: unable to open file D://anole_geno.snmf/K1/run1/anole_geno_r1.1.Q. Please, check that the name of the file you provided is correct.…
Comment: DESeq2 adujsted p-value cutoff seemingly not working
by
Guilherme
• 0
Thank you for your answer So the proper way to conduct the analysis is to put the filters in the results() function and later filter the da…
Comment: DiffBind - observation that the default union overlap is actually a gap of 1 bp
by
Ian D.
▴ 70
Please can you comment on this @rory.
Votes
A: how to extract Granges not overlapping with other ganges?
DESeq2 1.20.0 lfcshrink function
A: LIMMA on RT-PCR data
Answer: Efficiently working with HDF5-backed SingleCellExperiments
Efficiently working with HDF5-backed SingleCellExperiments
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