Bioconductor Timecourse

Showing : timecourse • reset

votes

replies

142

views

DESeq2 timecourse DifferentialExpression

updated 20 days ago by James W. MacDonald 65k • written 20 days ago by joshua.mannheimer • 0

votes

236

views

DESeq2 timecourse time

updated 3 months ago by Michael Love 41k • written 3 months ago by Anastasiia • 0

votes

256

views

RNASeq DESeq2 timecourse

3 months ago WS • 0

vote

replies

890

views

time-series DESeq2 RNASeq timecoursedata TimeCourse

updated 8 months ago by ATpoint ★ 4.0k • written 8 months ago by Debebe • 0

votes

486

views

timecoursedata RNASeqData TimeCourse DESeq2

updated 9 months ago by Michael Love 41k • written 9 months ago by georgii.vdovin • 0

votes

replies

1.3k

views

Transcriptomics TimeCourse DESeq2

updated 9 months ago by Michael Love 41k • written 9 months ago by smac97 • 0

votes

554

views

timecourse KEGG DESeq2

updated 10 months ago by Michael Love 41k • written 11 months ago by Fred • 0

vote

replies

2.6k

views

limma edger timecourse without replicate voom

written 7.4 years ago by Camila Orellana ▴ 10

votes

replies

1.4k

views

deseq2 timecourse design and contrast matrix

updated 6 weeks ago by ta_awwad ▴ 10 • written 8.5 years ago by Assa Yeroslaviz ★ 1.5k

9 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