Bioconductor Makecontrasts

Showing : makecontrasts • reset

votes

replies

1.8k

views

designmatrices differentialexpression makeContrasts limma model.matrix

3.0 years ago mohammedtoufiq91 ▴ 10

vote

replies

1.5k

views

makeContrasts edgeR

updated 3.6 years ago by Steve Lianoglou ★ 13k • written 3.7 years ago by Lina ▴ 10

vote

replies

1.1k

views

microarray dge matrix makecontrasts limma

updated 4.7 years ago by Gordon Smyth 52k • written 4.7 years ago by June. ▴ 10

votes

replies

2.6k

views

diffrential expression limma makeContrasts

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by S.Bamopoulos ▴ 10

votes

replies

1.2k

views

rnaseq edgeR makecontrasts interactions

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by David R ▴ 90

votes

replies

6.0k

views

limma model.matrix makecontrasts

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by enricoferrero ▴ 680

votes

899

views

deseq2 makecontrasts

updated 7.3 years ago by Michael Love 43k • written 7.3 years ago by samuel.quentin • 0

votes

replies

2.7k

views

contrast matrix toptable makecontrasts differential gene expression

7.5 years ago stinehedensted • 0

votes

replies

2.8k

views

limma contrast missing data lmfit makecontrasts

updated 7.6 years ago by Gordon Smyth 52k • written 7.6 years ago by wewolski ▴ 10

vote

replies

1.6k

views

limma toptable makecontrasts contrast matrix

updated 7.8 years ago by Ryan C. Thompson ★ 7.9k • written 7.8 years ago by hoe • 0

votes

replies

2.0k

views

rnaseq edger makecontrasts

updated 7.8 years ago by Aaron Lun ★ 28k • written 7.8 years ago by wangzhang1988 • 0

votes

replies

1.5k

views

limma model.matrix makecontrasts

8.1 years ago TFony ▴ 10

votes

replies

5.8k

views

limma design matrix makecontrasts multiple comparisons

8.2 years ago annabelle.congras ▴ 10

vote

replies

1.7k

views

edger makecontrasts timecourse

updated 8.4 years ago by Ryan C. Thompson ★ 7.9k • written 8.4 years ago by aec ▴ 90

votes

replies

1.7k

views

edger makecontrasts

8.9 years ago xiaoaozqd • 0

votes

replies

4.7k

views

limma microarray interaction model multiple factor design makeContrasts

updated 9.1 years ago by Aaron Lun ★ 28k • written 9.1 years ago by svlachavas ▴ 840

16 results • Page 1 of 1

Recent ...

Replies

Answer: Model performance for spline modelling of RNA-seq timecourses in edgeR by Gordon Smyth 52k

I don't understand your question, because there is no difference between limma or glmFit or glmQLFit in terms of spline modeling or the tes…

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0

Perhaps edgeR's upperquartile normalization handles this better, the MA looks a lot more centered at 0 ![enter image description here][1]…

Answer: DESeq2 - am I extracting results incorrectly? by James W. MacDonald 68k

If I assume that Followup gets converted to T3 and Treatment to LowSug somewhere along the line (and therefore GroupTreatment.Followup is G…

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0

I noticed the dual populations as well, when using csaw this is controlled for. Regarding the DE profile, given this disease condition we e…

Answer: Origin of the labels for the SingleCellMultiModal dataset by ATpoint ★ 4.8k

If you check the underlying code a bit you find that there is a file with data sources: ```r modes_file <- system.file("extdata", "metadat…

Votes

Answer: Improving performance of edgeR and limma while adjusting for multiple confounder

Comment: DESeq - help with pair wise comparisons

Answer: Is random access by row index possible for an indexed VCF file?

Answer: SingleR with multiple single cell references

Awards • All