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DEGseq
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4.1k
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RNA-seq analysis and two-way ANOVAs
edgeR
baySeq
DEGseq
DESeq
DEXSeq
edgeR
baySeq
DEGseq
DESeq
DEXSeq
updated 11.7 years ago by
Gordon Smyth
50k • written 11.7 years ago by
Elena Sorokin
▴ 150
0
votes
8
replies
2.0k
views
Experimental design for RNA-Seq
edgeR
DEGseq
DESeq
edgeR
DEGseq
DESeq
updated 13.9 years ago by
Naomi Altman
★ 6.0k • written 13.9 years ago by
michael watson IAH-C
★ 3.4k
0
votes
3
replies
1.7k
views
New package to identify differentially expressed genes from RNA-seq data
Annotation
DEGseq
Annotation
DEGseq
updated 14.6 years ago by
Ulrike Goebel
▴ 110 • written 14.6 years ago by
Naomi Altman
★ 6.0k
0
votes
3
replies
1.4k
views
Analysis of public GEO datasets - NGS
DEGseq
DEGseq
updated 11.6 years ago by
Aliaksei Holik
▴ 350 • written 11.6 years ago by
Guest User
★ 13k
0
votes
1
reply
1.4k
views
Problems in running easyRNASeq
Annotation
Organism
DEGseq
easyRNASeq
Annotation
Organism
DEGseq
easyRNASeq
updated 11.3 years ago by
delhomme@embl.de
★ 1.2k • written 11.3 years ago by
Guest User
★ 13k
1
vote
7
replies
1.4k
views
how to make a contrast of uniquely DE genes
edgeR
limma
RNA-seq
DEGseq
3.1 years ago
decppced
• 0
0
votes
0
replies
1.3k
views
NGS public data analysis
Transcription
DEGseq
Transcription
DEGseq
11.6 years ago
Jill Pleasance
▴ 10
0
votes
1
reply
1.2k
views
Problem with DEGseq/samWrapper
degseq
updated 6.9 years ago by
ab.tsubaki
• 0 • written 9.4 years ago by
jovel_juan
▴ 30
0
votes
3
replies
1.2k
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
12.2 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.2k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
12.2 years ago
Tina Asante Boahene
▴ 100
2
votes
5
replies
1.2k
views
Create the design matrix
DEGseq
edgeR
RNASeq
16 months ago
Mohammad
• 0
0
votes
3
replies
1.1k
views
DeSeq2- design experiment
rnaseq
degseq
6.6 years ago
laksharikrish
• 0
0
votes
0
replies
1.1k
views
DEGseq help
baySeq
DEGseq
baySeq
DEGseq
12.2 years ago
Tina Asante Boahene
▴ 100
0
votes
1
reply
1.1k
views
A question on DESeq
edgeR
DEGseq
DESeq
edgeR
DEGseq
DESeq
updated 13.8 years ago by
Simon Anders
★ 3.7k • written 13.8 years ago by
sunghee OH
▴ 50
0
votes
0
replies
1.1k
views
New package to identify differentially expressed genes from RNA-seq data
Annotation
DEGseq
Annotation
DEGseq
14.6 years ago
Likun Wang
▴ 50
0
votes
0
replies
935
views
A question on baySeq
Normalization
DEGseq
DESeq
Normalization
DEGseq
DESeq
13.8 years ago
sunghee OH
▴ 50
0
votes
2
replies
932
views
Seeking help in multifactor differential gene expression analysis using DESeq2. Can not get significance difference while comparing 3 time factor (…
DifferentialExpression
GeneExpression
R
enrichment
DEGseq
updated 22 months ago by
swbarnes2
★ 1.3k • written 22 months ago by
ac.mainul.mmb
• 0
1
vote
4
replies
928
views
How to figure out the FC value from Limma
limma
DEGseq
DifferentialExpression
updated 23 months ago by
Kevin Blighe
★ 3.9k • written 23 months ago by
beslinail
• 0
0
votes
0
replies
918
views
Regarding q-value
DEGseq
DEGseq
10.9 years ago
deepika lakhwani
▴ 170
0
votes
1
reply
872
views
R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar
DEGseq
MicroarrayData
updated 2.4 years ago by
James W. MacDonald
65k • written 2.4 years ago by
biomyscience
• 0
0
votes
0
replies
854
views
Extracting gene lists per timepoints using DEGPPatterns package and LRT
DEGseq
clusterProfiler
DEGreport
18 months ago
Rob
• 0
1
vote
2
replies
822
views
DESeq2 desing formula for cell fraction and siRNA scramble
DEGseq
DESeq2
Designformula
updated 3.0 years ago by
swbarnes2
★ 1.3k • written 3.0 years ago by
Nicolò
• 0
0
votes
2
replies
705
views
RNA-Seq Reads Count
DESeq2
htseq
DEGseq
RNASeq
read
updated 18 months ago by
Michael Love
41k • written 18 months ago by
CP
• 0
0
votes
1
reply
693
views
Meta analysis
DEGseq
Metanalysis
updated 2.5 years ago by
Kevin Blighe
★ 3.9k • written 2.5 years ago by
biomyscience
• 0
0
votes
2
replies
576
views
RNA seq differential expression analysis
DEGseq
RNASeqData
limma
updated 10 months ago by
Gordon Smyth
50k • written 10 months ago by
Shaimaa Gamal
• 0
0
votes
9
replies
563
views
limma fo continous variables
limma
DEGseq
updated 9 weeks ago by
James W. MacDonald
65k • written 10 weeks ago by
mia
• 0
0
votes
1
reply
507
views
Why was the number of DEG different between DESeq results and count by myself using excel?
RNASeqData
DEGseq
updated 8 months ago by
ATpoint
★ 4.1k • written 8 months ago by
sybyun419
• 0
27 results • Page
1 of 1
Recent ...
Replies
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Chris
• 0
Intent to delete when going home. Sorry for that!
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Gordon Smyth
50k
Please ask you own question. Inserting your own dataset into someone else's question like this is very impolite. I have already answered m…
Comment: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …
Comment: package goseq seems to be not available on the latest version of R
by
Patrycja
▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Chris
• 0
Thanks Gordon for the advice!
Votes
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
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