Showing : lmfit • reset
2
votes
4
replies
645
views
how limma work with continous variables
GordonSmyth limmaGUI lmFit voom
updated 3 months ago by 51k • written 3 months ago by ▴ 40
1
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1
reply
1.1k
views
Limma for paired and unpaired samples. Strange number of DEGs in unpaired samples
limma lmfit R DifferentialExpression
updated 2.5 years ago by ★ 4.5k • written 2.5 years ago by • 0
2
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3
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1.5k
views
lmFit, continuous exposure, adjustment covariates
lmFit
updated 2.5 years ago by 51k • written 3.4 years ago by • 0
0
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0
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908
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Incorporating limma duplicateCorrelation() function into minfi dmpFinder() for a mixed model approach
minfi limma lmm lmfit dmpFinder
3.4 years ago kyleyxw • 0
3
votes
4
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1.3k
views
lmFit, number of proteins
lmFit
3.5 years ago • updated 3.4 years ago AyHi • 0
1
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5
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1.8k
views
Limma for proteomic data! Please Help!
limma voom lmfit ebayesfit
updated 4.6 years ago by 51k • written 4.6 years ago by • 0
4
votes
6
replies
905
views
mean log2CPM after model fit (lmFit)
limma lmFit mean expression level
updated 4.6 years ago by 67k • written 4.6 years ago by • 0
2
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2
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1.1k
views
design matrix and correlate variable
limma lmfit
updated 5.5 years ago by ★ 28k • written 5.5 years ago by ▴ 10
2
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2
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1.3k
views
Different results from limma depending on whether or not I have an intercept term in my model
limma lmfit voom limma design matrix voomwithqualityweights
updated 5.9 years ago by 51k • written 5.9 years ago by ▴ 10
1
vote
8
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1.9k
views
Design matrix for regressing gene expression on a continuous variable - age
limma lmfit design matrix r
updated 6.3 years ago by ★ 28k • written 6.3 years ago by • 0
1
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7
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1.9k
views
model.matrix from GDS data
model.matrix lmFit eBayes GEOquery limma
6.7 years ago darthratus • 0
2
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3
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2.0k
views
Differential expression of nomalised and log2 transformed data in limma
limma lmfit model.matrix differential gene expression
7.1 years ago stinehedensted • 0
2
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5
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2.6k
views
Why does limma contrast.fit produces NA's for all contrast although missing data only in one condition?
limma contrast missing data lmfit makecontrasts
updated 7.2 years ago by 51k • written 7.2 years ago by ▴ 10
0
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3
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1.3k
views
Get back to individual measures to calculate coefficients like the lmFit fucntion (limma package)
limma lmfit weight individual
7.7 years ago stephane.cauchi ▴ 10
0
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2
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1.4k
views
Right use of model.matrix?
limma agilent microarray lmfit model.matrix
updated 8.0 years ago by 51k • written 8.0 years ago by ▴ 10
4
votes
8
replies
2.1k
views
Limma for paired and unpaired analysis with adjustment for categorical and continuous variables
limma illumina450k lmfit
updated 8.0 years ago by ★ 7.9k • written 8.0 years ago by • 0
2
votes
4
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1.8k
views
Problem with Agilent microarray data analysis using limma package
limma agilent microarrays lmfit
updated 8.3 years ago by 51k • written 8.3 years ago by • 0
2
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5
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4.7k
views
Analysis using a linear model
lmfit
updated 9.0 years ago by 51k • written 9.0 years ago by • 0
3
votes
6
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2.7k
views
How to get a list of differentialy expressed genes with data from Illumina array?
limma illumina microarray lmfit differential gene expression
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 10
2
votes
2
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2.6k
views
limma: Using log2 fold changes as input for a linear model fit
limma logfc lmfit
updated 9.4 years ago by ★ 28k • written 9.4 years ago by ▴ 10
2
votes
8
replies
2.5k
views
lmFit only deals with numerical values (data matrix object)?
limma lmFit
updated 9.9 years ago by 51k • written 13.6 years ago by ▴ 210
4
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3
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5.1k
views
p-values from robust linear model in LIMMA
limma lmFit
updated 9.9 years ago by 51k • written 10.4 years ago by ▴ 40
22 results • Page 1 of 1
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Comment: DESeq Input from Salmon + tximport/tximeta by ATpoint ★ 4.5k
> If I use gene_counts_length_scaled.tsv as a metric that has already normalized for library size and the average transcript length No, o…
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Gordon Smyth 51k
`nec` computes one set of negative control parameters (mu, sigma, alpha) for each sample. For values much larger than the background, the e…
Comment: DESeq Input from Salmon + tximport/tximeta by LuciaNhu • 0
Thank you to the author for the quick reply. If I use `gene_counts_length_scaled.tsv` as a metric that has already normalized for library s…
Answer: DESeq Input from Salmon + tximport/tximeta by Michael Love 42k
Given nf-core's pipeline here, you can use rounded counts from `gene_counts_length_scaled.tsv`.
Comment: Question about using LRT test for time course experiments with DESeq2 by James W. MacDonald 67k
You don't want to add a logFC on top like that, as it invalidates the p-value. Maybe I wasn't clear before. The LRT gives you all the gene…
Votes
Answer: DESeq Input from Salmon + tximport/tximeta
Answer: featureCounts segmentation fault with large chromosomes
Answer: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
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