Bioconductor PlotPCA

Showing : plotPCA • reset

votes

replies

41k

views

plotPCA deseq2 labels

updated 7.3 years ago by Federico Marini ▴ 150 • written 7.3 years ago by al-ash ▴ 50

votes

7.1k

views

deseq2 plotpca PCa

updated 6.5 years ago by Michael Love 41k • written 6.5 years ago by lirongrossmann ▴ 80

votes

replies

6.3k

views

plotpca DESeq2

2.3 years ago bjen731 ▴ 10

votes

replies

3.1k

views

deseq2 rlog variancestabilizingtransformation plotpca pca

6.6 years ago lirongrossmann ▴ 80

votes

replies

3.1k

views

DESeq2 plotPCA rlog transformation vsd

6.8 years ago Jane Merlevede ▴ 90

votes

replies

3.0k

views

plotPCA PCA

updated 12 months ago by hediatnani • 0 • written 13 months ago by Yijing • 0

votes

replies

2.3k

views

DESeq2 plotPCA

2.2 years ago • updated 2.1 years ago synat.keam • 0

votes

replies

1.5k

views

deseq2 plotPCA PCA rna-seq

7.9 years ago newsomew13 • 0

votes

replies

1.3k

views

plotPCA DESeq2 RUVSeq removebatcheffect()

3.0 years ago elizabethe819 • 0

votes

replies

1.0k

views

deseq2 biplot plotpca

updated 4.3 years ago by Michael Love 41k • written 4.3 years ago by ecg1g15 ▴ 20

votes

replies

970

views

pca plotpca

7.5 years ago marianarochadesouza • 0

vote

864

views

DESeq2 RNASeq plotpca

updated 3.2 years ago by Michael Love 41k • written 3.2 years ago by s1760083 • 0

votes

637

views

deseq2 PlotPCA draw.triple.venn

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by N. Perera • 0

vote

replies

612

views

plotMA ggplot2 plotPCA DESeq2

updated 6 months ago by Michael Love 41k • written 6 months ago by sara.jacobson • 0

votes

600

views

deseq2 plotpca

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by snp31 • 0

votes

replies

339

views

Rstudio plotPCA DESeq2

5 months ago • updated 4 months ago yee • 0

16 results • Page 1 of 1

Recent ...

Replies

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by James W. MacDonald 65k

You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…

Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k

Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0

Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…

Votes

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Answer: Interpret plot from DiffBind

Awards • All

Scholar to James W. MacDonald 65k

Supporter to JKim • 0