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Showing :
DESeq2
•
reset
38
votes
23
replies
18k
views
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
deseq2
11.4 years ago • updated 10 months ago
Michael Love
43k
31
votes
25
replies
63k
views
deseq2 filter the low counts
deseq2
lowcount
updated 12 weeks ago by
Michael Love
43k • written 10.9 years ago by
aristotele_m
▴ 40
17
votes
45
replies
13k
views
Can NanoString data be analyzed using DESeq2?
NanoString
Differential Expressed Genes Analysis
DESeq2
updated 4 months ago by
James W. MacDonald
68k • written 6.5 years ago by
lim6432
▴ 60
12
votes
7
replies
23k
views
DESEq2 comparison with mulitple cell types under 2 conditions
deseq2
multiple factor design
updated 8 months ago by
boczniak767
▴ 740 • written 10.7 years ago by
kmu004
▴ 50
9
votes
15
replies
7.5k
views
DESeq2 on NanoString Data
deseq2
nanostring
updated 4 months ago by
Michael Love
43k • written 7.6 years ago by
casey.rimland
▴ 170
9
votes
3
replies
3.3k
views
DESeq2 class error: superclass "ExpData" not defined in the environment of the object's class
DESeq2
updated 7 months ago by
Michael Love
43k • written 8 months ago by
Cassia
▴ 40
8
votes
10
replies
18k
views
GSEA preranked analysis downstream of DEseq2
deseq2
gsea
rnaseq
updated 8 months ago by
ATpoint
★ 5.0k • written 9.5 years ago by
EJ
▴ 20
7
votes
9
replies
5.8k
views
competitive enrichment test yields too few significant results, self-contained too many
limma
DESeq2
fry
edgeR
6 months ago
bbao
▴ 10
6
votes
4
replies
8.2k
views
DESeq2 with proteomics data
deseq2
updated 8 months ago by
wook2014
• 0 • written 7.5 years ago by
shyu
▴ 10
5
votes
30
replies
6.8k
views
DESeq2 model - How to test case/control time course model when taking account within sample variability?
deseq2
multiple time points
time course
casecontrol
model design
updated 9 months ago by
wuwenhui2
• 0 • written 8.6 years ago by
heikki.sarin
▴ 10
5
votes
3
replies
29k
views
DESeq2: thousands of NA for pvalues?
deseq2
rna-seq
DEGs
cooks cutoff
written 7.0 years ago by
aishu.jp
▴ 30
5
votes
11
replies
3.7k
views
parameters of filterByExpr
edgeR
DESeq2
filterByExpr
written 8 months ago by
caroline.zanchi
▴ 10
5
votes
4
replies
2.8k
views
How to formulate 2 factor nested design in DESeq2
nested_design
RNASeqData
DESeq2
updated 11 months ago by
Mariane
• 0 • written 3.7 years ago by
JK Kim
▴ 30
5
votes
5
replies
4.0k
views
Cannot extract size factor from DESeq2 analysis
deseq2
tximport
updated 7 months ago by
Michael Love
43k • written 5.7 years ago by
zroger499
• 0
4
votes
6
replies
1.7k
views
Surprising behavior for DEXseq dispersion estimate plot?
DESeq2
DEXSeq
updated 10 months ago by
ATpoint
★ 5.0k • written 10 months ago by
Elijah
• 0
4
votes
4
replies
2.2k
views
Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatmap
DESeq2
ComplexHeatmap
8 months ago
caroline.zanchi
▴ 10
4
votes
8
replies
2.0k
views
Should Xenium pseudobulk experiments be analysed like microarrays (limma) or like RNASeq (edgeR,Deseq2, or limma-voom)
Deseq2
edgeR
limma
xenium
Voom
6 months ago
richardallenfriedmanbrooklyn
▴ 30
3
votes
14
replies
1.3k
views
DESeq2 used with zinbwave weights - Differences on contrasts calculations
zinbwave
DESeq2
written 5 months ago by
Aurélie
• 0
3
votes
5
replies
1.2k
views
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
DESeq2
updated 4 months ago by
James W. MacDonald
68k • written 4 months ago by
snijesh
▴ 200
3
votes
6
replies
1.0k
views
Highly similar RNA-seq samples in PCA - pooling or technical duplication?
RNASeq
DESeq2
DifferentialExpression
RNASeqData
written 9 weeks ago by
Ahmed Salah
• 0
3
votes
13
replies
2.3k
views
Highly DE genes but small count difference within conditions
RNASeq
DESeq2
RNASeqData
written 15 months ago by
bioshot.com
• 0
3
votes
2
replies
1.5k
views
Biological replicates consideration in DESeq2 design formula.
DESeq2
RNASeqData
RNASeq
written 7 months ago by
Christian
▴ 20
3
votes
2
replies
2.1k
views
Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)
DESeq2
8 months ago • updated 7 months ago
dudutchy
▴ 10
3
votes
1
reply
696
views
DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change
DESeq2
apeglm
updated 8 months ago by
James W. MacDonald
68k • written 8 months ago by
sk
• 0
3
votes
7
replies
2.5k
views
Vertical line at A=0, nothing else, on MA plot
deseq2
updated 10 months ago by
melissa
▴ 10 • written 6.9 years ago by
david.wheeler7
▴ 20
3
votes
1
reply
3.9k
views
DESeq2 empirical bayes: variance of the prior for log fold changes (LFC)
DESeq2
updated 7 months ago by
Michael Love
43k • written 7 months ago by
Chenghao
▴ 10
2
votes
6
replies
2.6k
views
Too many significant genes when integrating gtex and tcga
RNA-seq
DESeq2
updated 10 months ago by
Jane
• 0 • written 20 months ago by
Reza
• 0
2
votes
4
replies
1.9k
views
Filtering after DESeq
DESeq2
IHW
written 9 months ago by
caroline.zanchi
▴ 10
2
votes
2
replies
915
views
Plot title for PCA in DESeq2
DESeq2
11 months ago
AL
• 0
2
votes
5
replies
901
views
Joining different datasets and analyzing using the group-specific condition effects strategy (DESeq2)
DESeq2
updated 8 days ago by
James W. MacDonald
68k • written 3.0 years ago by
Ana
• 0
2
votes
3
replies
1.6k
views
Differential gene expression analysis on haplotype-resolved diploid assembly
edgeR
DESeq2
haplotype
limma
8 months ago
Paulito
• 0
2
votes
6
replies
666
views
Very different log2 Fold changes with DESeq2 and explict calculation
DESeq2
5 months ago
richardallenfriedmanbrooklyn
▴ 30
2
votes
5
replies
1.5k
views
Group-specific condition effects with individuals nested: matrix is not full rank
DESeq2
11 months ago • updated 10 months ago
picasa1983
• 0
2
votes
4
replies
2.5k
views
deseq2 lfc shrinkage with few DEGs
RNASeq
DESeq2
updated 10 months ago by
Michael Love
43k • written 3.6 years ago by
Victor
▴ 10
2
votes
2
replies
756
views
Selection of correct coefficients or contrasts in DESeq2
DESeq2
updated 12 months ago by
swbarnes2
★ 1.4k • written 12 months ago by
Nathan
• 0
2
votes
3
replies
2.7k
views
How to convert transcript counts to gene counts in R?
DESeq2
tximport
updated 9 months ago by
ben
• 0 • written 3.3 years ago by
L
▴ 50
2
votes
4
replies
549
views
DESeq2 interactions
DESeq2
updated 12 weeks ago by
Michael Love
43k • written 4 months ago by
Michael
• 0
1
vote
3
replies
6.2k
views
DESeq2 estimateSizeFactors with control genes
deseq2
differential gene expression
controls
references
updated 10 months ago by
sofia.rigou
• 0 • written 7.2 years ago by
cris.kgs
• 0
1
vote
1
reply
1.4k
views
PhD scholar
RNASeqAnalysis
DESeq2
updated 9 months ago by
shepherl
4.3k • written 9 months ago by
Richa
• 0
1
vote
2
replies
2.8k
views
Deseq2 paired sample in the design is considered as "batch"?
DESeq2
written 7 months ago by
corranna98
• 0
1
vote
4
replies
2.8k
views
Pairwise comparison of multiple groups with different base
deseq2
rna-seq
r
updated 4 days ago by
ja569116
• 0 • written 5.7 years ago by
thjnant
▴ 10
1
vote
6
replies
2.2k
views
how to analysis htseq-count
deseq2
written 8.0 years ago by
Bioinformatics
▴ 30
1
vote
5
replies
2.1k
views
p-value the same for different contrasts DESeq2
deseq2
design and contrast matrix
updated 11 months ago by
caroline.zanchi
▴ 10 • written 7.7 years ago by
chitsazanalex
▴ 10
1
vote
5
replies
4.7k
views
DESeq2 swap ensembl gene id rownames with gene symbol column
deseq2
dataframe
ensembl gene id
gene symbol
entrezid
updated 10 months ago by
Erika
• 0 • written 6.1 years ago by
jason.williams
▴ 10
1
vote
2
replies
1.4k
views
Weird p-values using DESeq2?
DESeq2
RNASeq
updated 11 months ago by
ATpoint
★ 5.0k • written 11 months ago by
ingrid.h
• 0
1
vote
11
replies
2.1k
views
Using DESeq2 on single cell RNA Seq data of same cell type but different conditions that were pseudo bulked
DESeq2
scRNAseq
updated 8 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Raya
• 0
1
vote
2
replies
930
views
DiffBind getting Fold values of near 0
DiffBind
DESeq2
updated 4 months ago by
littlefishes20
▴ 10 • written 2.1 years ago by
Miquel
• 0
1
vote
1
reply
729
views
Interpreting DESEQ2 interaction term and inclusion of covariate
DESeq2
updated 11 months ago by
swbarnes2
★ 1.4k • written 11 months ago by
Len
▴ 10
1
vote
10
replies
11k
views
DESeq2: Continuous and discreate variables in the design
deseq2
R
rna-seq
design
updated 6 months ago by
Michael Love
43k • written 6.2 years ago by
raquelgarza95
• 0
1
vote
2
replies
2.9k
views
selecting result from deseq2
DESeq2
updated 4 months ago by
Michael Love
43k • written 5.8 years ago by
Nas 1989
• 0
124 results • Page
1 of 3
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