Showing : regression • reset
2
votes
1
reply
310
views
Question: How to Set Up Contrasts for Case-Control Analysis in Limma While Adjusting for Covariates?
MethylationArray EpigeneticsWorkflow limma Regression
updated 7 weeks ago by 67k • written 7 weeks ago by ▴ 10
0
votes
3
replies
422
views
RNA-seq with DESeq2 shrinkage estimation
Regression DESeq2 rnaseqGene
updated 3 months ago by 67k • written 3 months ago by • 0
1
vote
3
replies
543
views
Test of Multiple Linear Combination on coefficients from Wald Test in Deseq2
Regression DESeq2
4 months ago • updated 3 months ago David W. H. • 0
0
votes
2
replies
525
views
WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
7 months ago w.cookson • 0
5
votes
25
replies
1.7k
views
limma models out of memory issue on Slurm HPC
Regression limma STATISITICS HPC
updated 7 months ago by 51k • written 7 months ago by ▴ 10
0
votes
0
replies
452
views
multipollutant models
statistics Regression r limma
11 months ago Jitendra ▴ 10
2
votes
4
replies
1.4k
views
Overfitting in limma
limma Regression overfitting
updated 2.5 years ago by 51k • written 2.5 years ago by ▴ 30
1
vote
1
reply
993
views
limma: pvalues for coefficients topTable
TimeSeriesExperiment Regression top limma
updated 3.2 years ago by 67k • written 3.2 years ago by • 0
4
votes
3
replies
1.2k
views
Diffbind for regressing multiple confounding variables (blocking factors)
diffbind block regression deseq2 chipseq
updated 4.0 years ago by ★ 5.2k • written 5.0 years ago by ▴ 10
0
votes
1
reply
691
views
Which Package Should I Use to Predict Model Output Using RNA Seq Data?
regression
updated 4.3 years ago by 51k • written 4.4 years ago by • 0
7
votes
4
replies
5.3k
views
Limma when to use zero intercept
limma regression differential expression linear model
updated 4.7 years ago by 51k • written 4.7 years ago by • 0
1
vote
2
replies
965
views
EdgeR -- differentially expressed genes across a continuous variable
edger continuous regression
updated 5.8 years ago by 67k • written 5.8 years ago by • 0
6
votes
7
replies
2.4k
views
Multi-level experiment with limma
limma design and contrast matrix differential gene expression regression
updated 7.3 years ago by ★ 28k • written 7.3 years ago by • 0
3
votes
3
replies
1.4k
views
Limma - Two-color group differences *and* correlation with individual differences.
limma regression
updated 7.8 years ago by 51k • written 7.8 years ago by ▴ 30
1
vote
2
replies
3.8k
views
Kernel Ridge Regression in R for Drug-Target Interaction
regression kernel ridge r
updated 8.1 years ago by • 0 • written 8.5 years ago by • 0
2
votes
23
replies
4.1k
views
Coping with a label/class imbalance in DESeq2
deseq2 rnaseq r regression
updated 8.1 years ago by 42k • written 8.1 years ago by • 0
11
votes
3
replies
2.0k
views
Fit a multinomial to RNA-seq count data
voom limma glm multinomial regression
updated 8.3 years ago by ★ 3.4k • written 8.3 years ago by ▴ 110
1
vote
5
replies
2.0k
views
deseq2 normalized data
regression deseq2 counts
updated 9.1 years ago by 42k • written 9.1 years ago by • 0
0
votes
1
reply
1.1k
views
GWASTools: quasi-/perfect linear separation
Regression
updated 10.2 years ago by ▴ 870 • written 10.2 years ago by ★ 13k
0
votes
2
replies
2.2k
views
UCSC data anomaly in 50638 transcript(s): the cds cumulative length is
Genetics GO Regression Cancer TranscriptDb Genetics GO Regression Cancer TranscriptDb
updated 10.5 years ago by ▴ 570 • written 10.5 years ago by 16k
0
votes
1
reply
1.7k
views
Choosing the kernel for SVM (regression) using rminer package
Regression Regression
updated 10.6 years ago by ★ 13k • written 10.6 years ago by ★ 13k
0
votes
1
reply
1.7k
views
Support vector regression
Classification Regression Classification Regression
updated 10.6 years ago by ★ 13k • written 10.6 years ago by ★ 13k
0
votes
0
replies
1.6k
views
Data Analysis for Genomics, free HarvardX course, starts April 7
Regression Regression
10.6 years ago Michael Love 42k
0
votes
4
replies
2.6k
views
DESeq2 high fold change values for comparison of samples with zero counts
Regression DESeq DESeq2 Regression DESeq DESeq2
updated 10.8 years ago by 42k • written 10.7 years ago by ▴ 60
0
votes
3
replies
9.1k
views
ggplot2 error
Regression Regression
10.8 years ago Alyaa Mahmoud ▴ 440
2
votes
5
replies
15k
views
Limma design and contrast matrix question.
Microarray Regression limma Microarray Regression limma
updated 10.8 years ago by 67k • written 10.8 years ago by ▴ 380
0
votes
1
reply
1.8k
views
[MEDIPS] mergeFrames: `Error in rbind(output, cbind(chromosomes[i], new_start, new_stop)) `
Coverage Regression edgeR MEDIPS Coverage Regression edgeR MEDIPS
updated 10.8 years ago by ▴ 280 • written 10.8 years ago by ▴ 10
0
votes
2
replies
2.0k
views
[MEDIPS] Error in 1:max_signal_index : argument of length 0 - what does mean?
Preprocessing Regression MEDIPS Preprocessing Regression MEDIPS
updated 10.8 years ago by ▴ 570 • written 10.8 years ago by ▴ 20
0
votes
0
replies
1.8k
views
EdgeR Design matrix not of full rank. The following coefficients not estimable errorR
Regression edgeR Regression edgeR
10.9 years ago Gordon Smyth 51k
0
votes
0
replies
1.1k
views
EdgeR Design matrix not of full rank. The following coefficients not estimable errorR
Regression edgeR Regression edgeR
10.9 years ago Eugene Bolotin ▴ 20
0
votes
1
reply
1.7k
views
[R] freetype 2.5.2, problem with the survival package, build R 2.15.x with gcc 4.8.x
Regression Survival snpStats Regression Survival snpStats
10.9 years ago David Winsemius ▴ 40
0
votes
0
replies
3.8k
views
Inquiries about fitType on DESeq2
Regression DESeq2 Regression DESeq2
11.0 years ago Michael Love 42k
2
votes
2
replies
2.4k
views
[limma] [Rfit] [samr] Gene expression distribution using lmFit and eBayes
Microarray Regression Microarray Regression
updated 11.0 years ago by 51k • written 11.0 years ago by ▴ 30
0
votes
3
replies
3.9k
views
lower.limits and upper.limits in glmnet
Regression Regression
updated 11.1 years ago by ▴ 60 • written 11.1 years ago by ▴ 370
0
votes
0
replies
1.5k
views
CfP: CAMDA 2013 - 12th International Conference on Critical Assessment of Massive Data Analysis
Genetics Classification Regression Genetics Classification Regression
11.6 years ago CAMDA 2013 ▴ 30
0
votes
0
replies
1.3k
views
CAMDA 2013 Challenge: Big Data in Life Sciences
Sequencing Microarray Genetics Classification Clustering Regression Sequencing Microarray
11.6 years ago CAMDA 2013 ▴ 30
0
votes
10
replies
2.7k
views
assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
11.7 years ago • updated 11.6 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
4.4k
views
edgeR choose the best model of GLM
Regression edgeR Regression edgeR
updated 11.7 years ago by 51k • written 11.7 years ago by ▴ 40
0
votes
7
replies
1.9k
views
affy code archeology: expresso behavior for liwong/invariantset
Regression gcrma Regression gcrma
updated 11.8 years ago by 67k • written 11.8 years ago by ★ 13k
0
votes
1
reply
1.2k
views
[R] lowess regression
Regression Regression
updated 12.2 years ago by ▴ 10 • written 12.2 years ago by ▴ 670
0
votes
0
replies
1.1k
views
lowess regression
Regression Regression
12.2 years ago Bogdan ▴ 670
1
vote
1
reply
7.3k
views
[LIMMA]lmFit with continuous predictor
Regression limma Regression limma
updated 12.3 years ago by ▴ 130 • written 12.3 years ago by ▴ 210
0
votes
3
replies
1.3k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
updated 12.3 years ago by 25k • written 12.3 years ago by 51k
0
votes
0
replies
1.3k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
12.3 years ago alessandro.guffanti@genomnia.com ▴ 330
0
votes
0
replies
1.2k
views
about edgeR
Regression Regression
12.3 years ago wang peter ★ 2.0k
0
votes
0
replies
1.5k
views
design and contrast matrix for limma time series without replicates
Microarray GO Regression limma Microarray GO Regression limma
12.5 years ago Chunxuan Shao ▴ 30
0
votes
0
replies
955
views
Outcome~predictor model evaluation, repeated measurements
Regression Regression
12.5 years ago rad mac ▴ 10
0
votes
0
replies
1.8k
views
edgeR-DeSeq - inconsistency between Variance and Coefficient of Variation
Regression edgeR DESeq Regression edgeR DESeq
12.6 years ago Gordon Smyth 51k
8
votes
3
replies
7.4k
views
Removing batch effects with sva and combat using the sva package
Regression limma sva Regression limma sva
updated 12.9 years ago by ▴ 60 • written 12.9 years ago by ▴ 650
0
votes
0
replies
1.4k
views
Use of glm for multivariate logistic regression of microarray data
Microarray Regression Microarray Regression
13.0 years ago Ruppert Valentino ▴ 270
50 results • Page 1 of 1
Recent ...
Replies
Comment: How many of my genes from my gene list are in each KEGG pathway? by josephasmith1310 • 0
> You can compare the number in the column setSize versus the number of > genes in core_enrichment. The former corresponds to the number of…
Comment: EuroBioC2024 abstract submission is open! by Esperan • 0
Great information about the EuroBioC2024 conference! https://openreview.net/group?id=bioconductor.org/EuroBioC/2024/Conferences [slope](htt…
Answer: Combining RNAseq and microarray data using edgeR/limma-voom by Gordon Smyth 51k
I agree with James, although I tend to combine analyses using geneset tests rather than by meta analysis tools like GeneMeta. > My questio…
Comment: Adjusted p-values become NA when sub-setting samples by txema.heredia • 0
Thanks! I've been looking into DESeq2's code and, indeed, I get matching results when running manually the code inherited from the `genefi…
Answer: DESeq2 interaction between cancer cells and microenvironment cells by Michael Love 42k
I don't really know what you mean by "come from the contamination". You can look at the main effects and the interaction, but I don't know …
Votes
Answer: How do I merge a list of GRanges?
A: p.adjust BH generates duplicate values
Answer: Adjusted p-values become NA when sub-setting samples
Comment: Suggestion for FGSEA and GSEA creation for C57BL/6J Mice
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim
Awards • All
Popular Question to shepherl 4.1k
Supporter to Paul Harrison ▴ 100
Popular Question to Mikhail Dozmorov ▴ 30
Popular Question to Gordon Smyth 51k
Popular Question to Rohmatul • 0
Locations • All
United States, 5 minutes ago
Finland, 10 minutes ago
Denmark, 11 minutes ago
France, 12 minutes ago
United States, 14 minutes ago
Traffic: 923 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6