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degseq
•
reset
0
votes
3
replies
563
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Are unequal sample sizes in differential gene expression (DGE) analysis a problem for edgeR, DESeq2, and NOISeq? Could you give me some advice on how…
RNA
RNASeqPower
DEGseq
written 12 months ago by
Jonathan
• 0
0
votes
9
replies
2.2k
views
limma fo continous variables
limma
DEGseq
updated 21 months ago by
James W. MacDonald
68k • written 21 months ago by
mia
• 0
0
votes
1
reply
1.0k
views
Why was the number of DEG different between DESeq results and count by myself using excel?
RNASeqData
DEGseq
updated 2.3 years ago by
ATpoint
★ 5.0k • written 2.3 years ago by
sybyun419
• 0
0
votes
2
replies
1.1k
views
RNA seq differential expression analysis
DEGseq
RNASeqData
limma
updated 2.4 years ago by
Gordon Smyth
53k • written 2.4 years ago by
Shaimaa Gamal
• 0
2
votes
5
replies
1.8k
views
Create the design matrix
DEGseq
edgeR
RNASeq
2.9 years ago
Mohammad
• 0
0
votes
0
replies
1.4k
views
Extracting gene lists per timepoints using DEGPPatterns package and LRT
DEGseq
clusterProfiler
DEGreport
3.0 years ago
Rob
• 0
0
votes
2
replies
1.3k
views
RNA-Seq Reads Count
DESeq2
htseq
DEGseq
RNASeq
read
updated 3.0 years ago by
Michael Love
43k • written 3.1 years ago by
CP
• 0
0
votes
2
replies
1.4k
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 3.4 years ago by
swbarnes2
★ 1.4k • written 3.4 years ago by
ac.mainul.mmb
• 0
1
vote
4
replies
1.5k
views
How to figure out the FC value from Limma
limma
DEGseq
DifferentialExpression
updated 3.5 years ago by
Kevin Blighe
★ 4.0k • written 3.5 years ago by
beslinail
• 0
0
votes
1
reply
1.3k
views
R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar
DEGseq
MicroarrayData
updated 4.0 years ago by
James W. MacDonald
68k • written 4.0 years ago by
biomyscience
• 0
0
votes
1
reply
1000
views
Meta analysis
DEGseq
Metanalysis
updated 4.1 years ago by
Kevin Blighe
★ 4.0k • written 4.1 years ago by
biomyscience
• 0
1
vote
2
replies
1.2k
views
DESeq2 desing formula for cell fraction and siRNA scramble
DEGseq
DESeq2
Designformula
updated 4.5 years ago by
swbarnes2
★ 1.4k • written 4.5 years ago by
Nicolò
• 0
1
vote
7
replies
2.0k
views
how to make a contrast of uniquely DE genes
edgeR
limma
RNA-seq
DEGseq
4.7 years ago
decppced
• 0
0
votes
3
replies
1.6k
views
DeSeq2- design experiment
rnaseq
degseq
8.1 years ago
laksharikrish
• 0
0
votes
1
reply
1.5k
views
Problem with DEGseq/samWrapper
degseq
updated 8.4 years ago by
ab.tsubaki
• 0 • written 11.0 years ago by
jovel_juan
▴ 30
0
votes
0
replies
1.2k
views
Regarding q-value
DEGseq
DEGseq
12.4 years ago
deepika lakhwani
▴ 170
0
votes
1
reply
1.7k
views
Problems in running easyRNASeq
Annotation
Organism
DEGseq
easyRNASeq
Annotation
Organism
DEGseq
easyRNASeq
updated 12.8 years ago by
delhomme@embl.de
★ 1.2k • written 12.8 years ago by
Guest User
★ 13k
0
votes
3
replies
2.0k
views
Analysis of public GEO datasets - NGS
DEGseq
DEGseq
updated 13.2 years ago by
Aliaksei Holik
▴ 350 • written 13.2 years ago by
Guest User
★ 13k
0
votes
0
replies
1.5k
views
NGS public data analysis
Transcription
DEGseq
Transcription
DEGseq
13.2 years ago
Jill Pleasance
▴ 10
0
votes
1
reply
4.5k
views
RNA-seq analysis and two-way ANOVAs
edgeR
baySeq
DEGseq
DESeq
DEXSeq
edgeR
baySeq
DEGseq
DESeq
DEXSeq
updated 13.2 years ago by
Gordon Smyth
53k • written 13.2 years ago by
Elena Sorokin
▴ 160
0
votes
3
replies
1.5k
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
13.7 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.4k
views
DEGseq help
baySeq
DEGseq
baySeq
DEGseq
13.8 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.4k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
13.8 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.2k
views
A question on baySeq
Normalization
DEGseq
DESeq
Normalization
DEGseq
DESeq
15.3 years ago
sunghee OH
▴ 50
0
votes
1
reply
1.3k
views
A question on DESeq
edgeR
DEGseq
DESeq
edgeR
DEGseq
DESeq
updated 15.3 years ago by
Simon Anders
★ 3.8k • written 15.3 years ago by
sunghee OH
▴ 50
0
votes
8
replies
2.9k
views
Experimental design for RNA-Seq
edgeR
DEGseq
DESeq
edgeR
DEGseq
DESeq
updated 15.5 years ago by
Naomi Altman
★ 6.0k • written 15.5 years ago by
michael watson IAH-C
★ 3.4k
0
votes
3
replies
2.1k
views
New package to identify differentially expressed genes from RNA-seq data
Annotation
DEGseq
Annotation
DEGseq
updated 16.1 years ago by
Ulrike Goebel
▴ 110 • written 16.1 years ago by
Naomi Altman
★ 6.0k
0
votes
0
replies
1.3k
views
New package to identify differentially expressed genes from RNA-seq data
Annotation
DEGseq
Annotation
DEGseq
16.1 years ago
Likun Wang
▴ 50
28 results • Page
1 of 1
Recent ...
Replies
Answer: mzR-Rcpp compiler version issue
by
Laurent Gatto
1.6k
There are two issues here. First, a warning about mzR, that you can safely ignore. It tells you that mzR was compiled using a different …
Comment: Identifying differentially expressed genes in individual samples from a large co
by
jamie.gearing
▴ 60
Great. Yes, something descriptive is probably good enough, even if the p-values themselves are not so rigorous. Thanks very much Gordon!
Comment: Co-occurrence Network Analysis between Algae and Bacteria
by
Stefano Mangiola
▴ 40
Just a placeholder, that we are extending `sccomp` to co-occurrence analyses. Yours could be a good use-case to test first. We will be in t…
Answer: DESeq2 design for haplotype MPRA
by
aimesd808
• 0
I appreciate you telling me about this. Now it's crystal plain to me. Publish this: https://support.bioconductor.org/p/9162649/
Answer: Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single C
by
Kevin Blighe
★ 4.0k
Hello Lei, The concept of pseudobulk analysis applies equally to cell surface protein data as it does to gene expression data in single-…
Votes
Answer: Identifying differentially expressed genes in individual samples from a large co
Answer: Identifying differentially expressed genes in individual samples from a large co
Bioconductor Seminar Series - Dec 2: Deep-learning Gene Perturbation Effect Prediction
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Comment: Error installing Seqinfo
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