Showing : limma • reset
3
votes
2
replies
1.1k
views
limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 17 months ago by 53k • written 18 months ago by • 0
0
votes
1
reply
707
views
Gene-by-sample covariates in limma
Metabolomics limma
updated 18 months ago by 53k • written 18 months ago by • 0
3
votes
4
replies
1.0k
views
Help with error using camera() in limma
CAMERA limma
18 months ago Chris ▴ 20
0
votes
3
replies
895
views
Assist me in determining whether the analysis process using the limma package has been executed correctly.
GEOquery ArrayExpress limma DifferentialExpression
updated 18 months ago by 68k • written 18 months ago by • 0
0
votes
2
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778
views
limma-voom: Calculate the log-fold change in gene expression within a sample
limma RNASeq voom
written 18 months ago by • 0
0
votes
2
replies
1.2k
views
RNAseq:Technical replicates from different batches
technicalReplicates BatchEffect limma RNASeq
18 months ago catv • 0
15
votes
17
replies
3.5k
views
Why p value inconsistent when using different number of pathway score?
limma
18 months ago Chris ▴ 20
5
votes
3
replies
1.5k
views
Log-cpm values from limma
limma edgeR RNASeq
updated 18 months ago by 53k • written 19 months ago by • 0
0
votes
7
replies
2.3k
views
Methylation Analysis experiment design using Limma
DNAMethylation limma methylationArrayAnalysis
19 months ago • updated 18 months ago hortense96 • 0
1
vote
3
replies
947
views
Why is my gene not significantly differentially expressed?
limmaGUI edgeR limma
updated 19 months ago by 53k • written 19 months ago by • 0
5
votes
9
replies
2.1k
views
Light difference when using coef vs omit a group when compare 3 groups.
limma
19 months ago Chris ▴ 20
2
votes
6
replies
4.2k
views
How to make boxplot with pairwise and overall p value from Limma
t.test boxplot limma anova
19 months ago Chris ▴ 20
0
votes
1
reply
580
views
Limma design matrix only showing 3/4 treatments?
limma designmatrix
updated 19 months ago by 53k • written 19 months ago by • 0
0
votes
4
replies
890
views
Help with design.matrix
limma
19 months ago andrea.rodriguez-martinez13 • 0
1
vote
4
replies
1.1k
views
Using a change in a continuous explanatory variable to test changes in gene expression with limma
limma
updated 19 months ago by 53k • written 19 months ago by • 0
0
votes
2
replies
858
views
voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
19 months ago Gimena • 0
15
votes
23
replies
5.2k
views
The difference when using Limma compare between 3 conditions vs 2 conditions
limma
19 months ago • updated 18 months ago Chris ▴ 20
2
votes
8
replies
1.4k
views
Microarray Limma Model fitting and DEG
limma DGEanalysis
updated 19 months ago by 53k • written 19 months ago by • 0
5
votes
25
replies
3.1k
views
limma models out of memory issue on Slurm HPC
Regression limma STATISITICS HPC
updated 19 months ago by 53k • written 19 months ago by ▴ 10
7
votes
6
replies
1.2k
views
Batch Effect Correction, Gene Filtering
DGE limma
updated 19 months ago by 53k • written 19 months ago by • 0
0
votes
1
reply
1.1k
views
Using splicing junction counts with edgeR/limma-voom
splicing limma edgeR
updated 19 months ago by 53k • written 19 months ago by • 0
0
votes
4
replies
1.1k
views
Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
20 months ago • updated 19 months ago Efra • 0
5
votes
7
replies
1.6k
views
DEG Filtering
MicroarrayData limma Genefiltering
updated 19 months ago by 53k • written 20 months ago by • 0
2
votes
2
replies
833
views
Question about extracting co-efficients for pairwise comparisons in edgeR
limma fit design RNASeq edgeR
20 months ago Sabiha ▴ 20
0
votes
2
replies
3.0k
views
RNA sequencing raw counts gene filtering
DESeq2 limma RNAseq
20 months ago kcarey • 0
1
vote
3
replies
1.0k
views
Cross-species analysis - how to compute the mid parent value?
DESeq2 limma edgeR DifferentialExpression
written 21 months ago by • 0
2
votes
6
replies
1.6k
views
limma: vooma mean-variance trend and data filtration
MicroarrayData limma
20 months ago • updated 19 months ago Lily Cheang ▴ 10
3
votes
8
replies
1.4k
views
Constrast for Time Course Experiments using Limma
limma
20 months ago dl17032000 • 0
8
votes
6
replies
1.2k
views
DGE analysis with LIMMA
limma
updated 20 months ago by 53k • written 20 months ago by • 0
0
votes
0
replies
578
views
Can I combine collinear variables into a single value
BatchEffect limma
20 months ago Harrsha • 0
0
votes
3
replies
1.2k
views
Differential enrichment analysis
limma Differentialenrichmentanalysis DEP
updated 20 months ago by 53k • written 20 months ago by • 0
0
votes
4
replies
1.0k
views
Interactions in batches of varying size with different number of replicates using limma
limma RNASeq DifferentialExpression
20 months ago mperalc • 0
3
votes
5
replies
1.7k
views
DESEQ Inquiry
DESeq2 rnaseqGene RNASeqData limma RNASeq
updated 20 months ago by 43k • written 20 months ago by ▴ 10
2
votes
1
reply
732
views
Limma Question
DESeq2 BatchEffect limma RNASeq
updated 20 months ago by 43k • written 20 months ago by ▴ 10
1
vote
2
replies
946
views
Bioconductor unreachable?
limma
20 months ago edoardo • 0
0
votes
9
replies
2.2k
views
limma fo continous variables
limma DEGseq
updated 20 months ago by 68k • written 20 months ago by • 0
0
votes
2
replies
808
views
limma model matrix questions
limmaGUI limma pairedsamples
20 months ago whyw6948 • 0
0
votes
2
replies
1.1k
views
Limma with replicates at different time points
RNAs limma Differen
21 months ago • updated 20 months ago alessandro • 0
2
votes
1
reply
782
views
Normalization factors when there is a possible unidirectional expression
limma Normalization DifferentialExpression
updated 21 months ago by ★ 5.0k • written 21 months ago by • 0
1
vote
3
replies
1.5k
views
CAMERA + Gene Ontology Gene Sets
GO limma CAMERA
updated 21 months ago by 53k • written 21 months ago by ▴ 10
0
votes
4
replies
1.1k
views
limma with interaction term
R biostatistics limma Epigenetics
21 months ago • updated 20 months ago Jitendra ▴ 10
3
votes
2
replies
1.0k
views
Design matrix after RUVg correction
RUVSeq limma DifferentialExpression
21 months ago Shaimaa Gamal • 0
2
votes
3
replies
930
views
Longitudinal analysis in Limma: Block=ID as random effect
limma
21 months ago COPD_Project • 0
2
votes
2
replies
765
views
Limma design for 3 replicated time courses comparing treatment vs placebo
design limma
21 months ago SamGG ▴ 360
1
vote
4
replies
1.4k
views
limma design model for categorical variable
DNAMethylation limmaGUI biostatistics limma
updated 21 months ago by 53k • written 21 months ago by ▴ 10
4
votes
3
replies
1.1k
views
voom with quality weights after RUV correction
RUVSeq limma DifferentialExpression
updated 21 months ago by 53k • written 21 months ago by • 0
2
votes
3
replies
1.1k
views
TMM normalization after RUVg correction
RUVSeq limma DifferentialExpression edgeR Normalization
updated 21 months ago by 68k • written 21 months ago by • 0
1
vote
2
replies
2.4k
views
How to combine a bulk and pseudobulk dataset?
DESeq2 limma RNASeq RNASeqData
written 2.5 years ago by • 0
0
votes
2
replies
722
views
Pairwise analysis of DESeq result and limma result
DESeq2 limma
21 months ago Lily Cheang ▴ 10
1
vote
2
replies
994
views
Longitudinal analysis in Limma
limma
21 months ago COPD_Project • 0
4,225 results • Page 3 of 85
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Comment: Save the Date: BioC2026 by eja.gsssssswwse.r.m • 0
Que notícia incrivel sobre o BioC2026 Para quem gosta de aproveitar o conteudo online, também e possvel Baixar [snaptube versão antiga][1] …
Comment: Ensembl 115 has been released! by eja.gsssssswwse.r.m • 0
Keeping up with Ensembls latest release ensures access to cutting-edge genomic information. For those balancing research and leisure, a mob…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Answer: gene Set with high AUC score but no cells assigned to cell type by Kevin Blighe ★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
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