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degseq
•
reset
0
votes
3
replies
541
views
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 10 months ago by
Jonathan
• 0
0
votes
9
replies
2.1k
views
limma fo continous variables
limma
DEGseq
updated 19 months ago by
James W. MacDonald
68k • written 19 months ago by
mia
• 0
0
votes
1
reply
942
views
Why was the number of DEG different between DESeq results and count by myself using excel?
RNASeqData
DEGseq
updated 2.1 years ago by
ATpoint
★ 5.0k • written 2.1 years ago by
sybyun419
• 0
0
votes
2
replies
970
views
RNA seq differential expression analysis
DEGseq
RNASeqData
limma
updated 2.3 years ago by
Gordon Smyth
53k • written 2.3 years ago by
Shaimaa Gamal
• 0
2
votes
5
replies
1.8k
views
Create the design matrix
DEGseq
edgeR
RNASeq
2.8 years ago
Mohammad
• 0
0
votes
0
replies
1.4k
views
Extracting gene lists per timepoints using DEGPPatterns package and LRT
DEGseq
clusterProfiler
DEGreport
2.9 years ago
Rob
• 0
0
votes
2
replies
1.2k
views
RNA-Seq Reads Count
DESeq2
htseq
DEGseq
RNASeq
read
updated 2.9 years ago by
Michael Love
43k • written 2.9 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 3.3 years ago by
swbarnes2
★ 1.4k • written 3.3 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 3.4 years ago by
Kevin Blighe
★ 4.0k • written 3.4 years ago by
beslinail
• 0
0
votes
1
reply
1.3k
views
R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar
DEGseq
MicroarrayData
updated 3.8 years ago by
James W. MacDonald
68k • written 3.8 years ago by
biomyscience
• 0
0
votes
1
reply
942
views
Meta analysis
DEGseq
Metanalysis
updated 4.0 years ago by
Kevin Blighe
★ 4.0k • written 4.0 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 4.4 years ago by
swbarnes2
★ 1.4k • written 4.4 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
4.6 years ago
decppced
• 0
0
votes
3
replies
1.6k
views
DeSeq2- design experiment
rnaseq
degseq
8.0 years ago
laksharikrish
• 0
0
votes
1
reply
1.5k
views
Problem with DEGseq/samWrapper
degseq
updated 8.3 years ago by
ab.tsubaki
• 0 • written 10.8 years ago by
jovel_juan
▴ 30
0
votes
0
replies
1.1k
views
Regarding q-value
DEGseq
DEGseq
12.3 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 12.7 years ago by
delhomme@embl.de
★ 1.2k • written 12.7 years ago by
Guest User
★ 13k
0
votes
3
replies
1.9k
views
Analysis of public GEO datasets - NGS
DEGseq
DEGseq
updated 13.0 years ago by
Aliaksei Holik
▴ 350 • written 13.1 years ago by
Guest User
★ 13k
0
votes
0
replies
1.5k
views
NGS public data analysis
Transcription
DEGseq
Transcription
DEGseq
13.0 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 13.1 years ago by
Gordon Smyth
53k • written 13.1 years ago by
Elena Sorokin
▴ 160
0
votes
3
replies
1.5k
views
Help with plot comparison
baySeq
DEGseq
baySeq
DEGseq
13.6 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.3k
views
DEGseq help
baySeq
DEGseq
baySeq
DEGseq
13.7 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.4k
views
FDR (False Discovery Rate)
baySeq
DEGseq
baySeq
DEGseq
13.7 years ago
Tina Asante Boahene
▴ 100
0
votes
0
replies
1.2k
views
A question on baySeq
Normalization
DEGseq
DESeq
Normalization
DEGseq
DESeq
15.2 years ago
sunghee OH
▴ 50
0
votes
1
reply
1.3k
views
A question on DESeq
edgeR
DEGseq
DESeq
edgeR
DEGseq
DESeq
updated 15.2 years ago by
Simon Anders
★ 3.8k • written 15.2 years ago by
sunghee OH
▴ 50
0
votes
8
replies
2.8k
views
Experimental design for RNA-Seq
edgeR
DEGseq
DESeq
edgeR
DEGseq
DESeq
updated 15.4 years ago by
Naomi Altman
★ 6.0k • written 15.4 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 16.0 years ago by
Ulrike Goebel
▴ 110 • written 16.0 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
16.0 years ago
Likun Wang
▴ 50
28 results • Page
1 of 1
Recent ...
Replies
Comment: Help with defining groups
by
Phinney, Brett
▴ 10
I got it working , thank you!!!
Comment: Results with PON give more variants
by
ejafgdf4.ge.r.m
• 0
It s common to expect Mutect2 with a PON to be a strict subset of Mutect2 without it but seeing unique variants in Mutect2withPON isn t unu…
Comment: Check removeBatchEffect effectiveness
by
massimo
• 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package
by
ksankaran
• 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
ATpoint
★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Comment: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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