Showing : Regression • reset
5
votes
25
replies
985
views
limma models out of memory issue on Slurm HPC
Regression limma STATISITICS HPC
updated 6 weeks ago by 50k • written 7 weeks ago by ▴ 10
2
votes
23
replies
3.6k
views
Coping with a label/class imbalance in DESeq2
deseq2 rnaseq r regression
updated 7.6 years ago by 42k • written 7.6 years ago by • 0
0
votes
10
replies
2.4k
views
assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray Annotation GO Network Regression Survival Infrastructure Escherichia coli ROC
11.2 years ago Julie Zhu ★ 4.3k
6
votes
7
replies
2.2k
views
Multi-level experiment with limma
limma design and contrast matrix differential gene expression regression
updated 6.8 years ago by ★ 28k • written 6.8 years ago by • 0
0
votes
7
replies
1.8k
views
affy code archeology: expresso behavior for liwong/invariantset
Regression gcrma Regression gcrma
updated 11.3 years ago by 65k • written 11.3 years ago by ★ 13k
0
votes
7
replies
1.4k
views
M vs A plot
Microarray Normalization Regression Cancer marray Microarray Normalization Regression
updated 20.2 years ago by ★ 6.0k • written 20.3 years ago by ★ 2.0k
0
votes
7
replies
1.3k
views
IRanges: interaction with model fitting
Regression IRanges Regression IRanges
updated 13.8 years ago by 25k • written 13.8 years ago by ★ 6.5k
0
votes
6
replies
1.4k
views
SNPcounts error in SNPlocs.Hsapiens.dbSNP.20110815_0.99.3 (i.e., my attempt to update SNPlocs to dbSNP build 134)
Regression SNPlocs Biostrings Regression SNPlocs Biostrings
updated 12.7 years ago by 6.7k • written 12.7 years ago by ★ 4.2k
0
votes
5
replies
1.3k
views
limma question: direct two-color design & modeling individual subject effects
SystemsBiology Regression probe limma SystemsBiology Regression probe limma
updated 17.1 years ago by ★ 1.1k • written 17.1 years ago by 50k
1
vote
5
replies
1.8k
views
deseq2 normalized data
regression deseq2 counts
updated 8.7 years ago by 42k • written 8.7 years ago by • 0
0
votes
5
replies
3.0k
views
Finding genes with significant linear regression or trend
Microarray Regression Cancer limma DOSE Microarray Regression Cancer limma DOSE
updated 16.0 years ago by ▴ 340 • written 16.0 years ago by ★ 1.9k
2
votes
5
replies
15k
views
Limma design and contrast matrix question.
Microarray Regression limma Microarray Regression limma
updated 10.3 years ago by 65k • written 10.3 years ago by ▴ 360
0
votes
5
replies
1.2k
views
IRanges causes bug in complete.cases
Regression IRanges Regression IRanges
updated 14.4 years ago by ★ 11k • written 14.4 years ago by ★ 6.5k
7
votes
4
replies
4.3k
views
Limma when to use zero intercept
limma regression differential expression linear model
updated 4.2 years ago by 50k • written 4.2 years ago by • 0
0
votes
4
replies
2.5k
views
DESeq2 high fold change values for comparison of samples with zero counts
Regression DESeq DESeq2 Regression DESeq DESeq2
updated 10.3 years ago by 42k • written 10.3 years ago by ▴ 60
0
votes
4
replies
2.1k
views
How to create nested data frames
Regression Regression
16.6 years ago Ana Conesa ▴ 130
2
votes
4
replies
1.2k
views
Overfitting in limma
limma Regression overfitting
updated 2.0 years ago by 50k • written 2.0 years ago by ▴ 30
0
votes
4
replies
1.4k
views
Model variable optimisation
Regression probe limma AgiMicroRna Regression probe limma AgiMicroRna
updated 13.9 years ago by ▴ 330 • written 13.9 years ago by ▴ 60
0
votes
3
replies
1.4k
views
GCRMA: feature request
GO Regression probe gcrma frma GO Regression probe gcrma frma
updated 13.3 years ago by ▴ 250 • written 13.3 years ago by ★ 4.0k
0
votes
3
replies
8.9k
views
ggplot2 error
Regression Regression
10.3 years ago Alyaa Mahmoud ▴ 440
0
votes
3
replies
1.2k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
updated 11.9 years ago by 25k • written 11.9 years ago by 50k
4
votes
3
replies
1.0k
views
Diffbind for regressing multiple confounding variables (blocking factors)
diffbind block regression deseq2 chipseq
updated 3.5 years ago by ★ 5.2k • written 4.5 years ago by ▴ 10
0
votes
3
replies
3.6k
views
lower.limits and upper.limits in glmnet
Regression Regression
updated 10.6 years ago by ▴ 60 • written 10.6 years ago by ▴ 370
1
vote
3
replies
2.1k
views
limma report logFC confidence interval?
Regression limma Regression limma
updated 2.9 years ago by 50k • written 13.3 years ago by ▴ 40
11
votes
3
replies
1.8k
views
Fit a multinomial to RNA-seq count data
voom limma glm multinomial regression
updated 7.8 years ago by ★ 3.3k • written 7.8 years ago by ▴ 110
3
votes
3
replies
1.3k
views
Limma - Two-color group differences *and* correlation with individual differences.
limma regression
updated 7.3 years ago by 50k • written 7.3 years ago by ▴ 30
8
votes
3
replies
6.9k
views
Removing batch effects with sva and combat using the sva package
Regression limma sva Regression limma sva
updated 12.4 years ago by ▴ 60 • written 12.4 years ago by ▴ 650
0
votes
2
replies
3.5k
views
multtest and Cox regression
Regression multtest Regression multtest
updated 19.1 years ago by ▴ 10 • written 19.1 years ago by ▴ 140
0
votes
2
replies
2.0k
views
UCSC data anomaly in 50638 transcript(s): the cds cumulative length is
Genetics GO Regression Cancer TranscriptDb Genetics GO Regression Cancer TranscriptDb
updated 10.0 years ago by ▴ 570 • written 10.0 years ago by 16k
0
votes
2
replies
241
views
WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
7 weeks ago • updated 6 weeks ago w.cookson • 0
0
votes
2
replies
1.9k
views
[MEDIPS] Error in 1:max_signal_index : argument of length 0 - what does mean?
Preprocessing Regression MEDIPS Preprocessing Regression MEDIPS
updated 10.4 years ago by ▴ 570 • written 10.4 years ago by ▴ 20
0
votes
2
replies
4.2k
views
edgeR choose the best model of GLM
Regression edgeR Regression edgeR
updated 11.2 years ago by 50k • written 11.2 years ago by ▴ 40
0
votes
2
replies
823
views
Newbe question
Regression Regression
12.8 years ago SimonNoël ▴ 450
2
votes
2
replies
2.3k
views
[limma] [Rfit] [samr] Gene expression distribution using lmFit and eBayes
Microarray Regression Microarray Regression
updated 10.5 years ago by 50k • written 10.5 years ago by ▴ 30
1
vote
2
replies
793
views
EdgeR -- differentially expressed genes across a continuous variable
edger continuous regression
updated 5.3 years ago by 65k • written 5.3 years ago by • 0
0
votes
2
replies
927
views
Filter before? Filter after? With maanova
Regression probe maanova Regression probe maanova
updated 14.9 years ago by ★ 5.5k • written 14.9 years ago by ★ 1.0k
0
votes
2
replies
1.9k
views
how to create an affybatch
Normalization Regression hgu133a probe Normalization Regression hgu133a probe
14.9 years ago Venkat Sundar ▴ 30
0
votes
2
replies
897
views
missing values in limma/contrasts.fit
Microarray Regression probe limma Microarray Regression probe limma
updated 14.4 years ago by ▴ 70 • written 14.4 years ago by 50k
0
votes
2
replies
1.1k
views
Maanova & createdata
Regression maanova Regression maanova
updated 15.5 years ago by ▴ 450 • written 15.5 years ago by ★ 1.0k
0
votes
2
replies
1.1k
views
Drosophila GeneChip analysis
Regression Regression
updated 20.0 years ago by ▴ 620 • written 20.0 years ago by ▴ 30
0
votes
2
replies
956
views
Does old workspace work?
Regression probe gcrma PROcess maanova Regression probe gcrma PROcess maanova
updated 15.5 years ago by ★ 6.5k • written 15.5 years ago by ★ 1.0k
1
vote
2
replies
3.5k
views
Kernel Ridge Regression in R for Drug-Target Interaction
regression kernel ridge r
updated 7.6 years ago by • 0 • written 8.1 years ago by • 0
0
votes
1
reply
1.5k
views
Choosing the kernel for SVM (regression) using rminer package
Regression Regression
updated 10.1 years ago by ★ 13k • written 10.1 years ago by ★ 13k
0
votes
1
reply
2.1k
views
Dose-Response: Regressiion and ANOVA
Regression DOSE Regression DOSE
updated 19.4 years ago by ▴ 360 • written 19.4 years ago by ▴ 620
0
votes
1
reply
1.1k
views
question about limma fit differences?
Regression limma Regression limma
updated 20.3 years ago by 50k • written 20.3 years ago by ▴ 20
0
votes
1
reply
711
views
mean versus linear model?
Regression limma Regression limma
updated 20.4 years ago by ★ 6.0k • written 20.4 years ago by ▴ 340
0
votes
1
reply
1.6k
views
[MEDIPS] mergeFrames: `Error in rbind(output, cbind(chromosomes[i], new_start, new_stop)) `
Coverage Regression edgeR MEDIPS Coverage Regression edgeR MEDIPS
updated 10.3 years ago by ▴ 240 • written 10.3 years ago by ▴ 10
0
votes
1
reply
1.3k
views
Bioconductor 2.1 is released
SNP Microarray SAGE Annotation Bayesian Regression GUI CGH hgu95av2 graph Rgraphviz SNP
16.6 years ago Hervé Pagès 16k
0
votes
1
reply
1.6k
views
Support vector regression
Classification Regression Classification Regression
updated 10.1 years ago by ★ 13k • written 10.1 years ago by ★ 13k
0
votes
1
reply
1.0k
views
GWASTools: quasi-/perfect linear separation
Regression
updated 9.7 years ago by ▴ 870 • written 9.7 years ago by ★ 13k
50 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network() by ninidea • 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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