Bioconductor Time-course

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691

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microarray normalization tscR time-course

updated 4.4 years ago by Kevin Blighe ★ 4.0k • written 4.4 years ago by keremwai • 0

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974

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deseq2 time-serie time-course fold-change

updated 4.6 years ago by swbarnes2 ★ 1.4k • written 4.6 years ago by Victor Chano • 0

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748

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deseq2 design time-course

updated 5.5 years ago by Michael Love 43k • written 5.5 years ago by Victor Chano • 0

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1.7k

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deseq2 Time-course

updated 5.6 years ago by Michael Love 43k • written 5.6 years ago by h.valipour.k • 0

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2.6k

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deseq2 time-course

updated 6.5 years ago by Michael Love 43k • written 6.5 years ago by rbenel ▴ 40

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1.1k

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masigpro covariates limma differential expression time-course

7.2 years ago veersingh.marwah • 0

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2.8k

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limma multiple time points time-course differential expression

updated 7.2 years ago by Aaron Lun ★ 28k • written 7.2 years ago by Jake • 0

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2.3k

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rnaseq deseq2 time-course

updated 7.4 years ago by Gavin Kelly ▴ 690 • written 7.4 years ago by inzirio ▴ 10

8 results • Page 1 of 1

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Answer: RSubread output significantly different from bash Subread output by Gordon Smyth 52k

The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…

Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square by Michael Love 43k

I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…

Comment: sva: get a sv for RIN scores by gabriel.hoffman ▴ 170

Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.

Comment: RSubread output significantly different from bash Subread output by Aimee • 0

Thank you! I will try rerunning with that parameter and see if it fixes the discrepancy! I'll report back. Update: This completely resolve…

Answer: RSubread output significantly different from bash Subread output by ATpoint ★ 4.6k

The R version counts multimappers (countMultiMappingReads is TRUE by default) while the command line version does not. It's beyond me why t…

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Answer: RSubread output significantly different from bash Subread output

Answer: How to annotate a limma Elist raw class object with an annotation file

Comment: How to annotate a limma Elist raw class object with an annotation file

QSEA- Extraction of Normalized methylation across the samples

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Teacher to Michael Love 43k

Popular Question to Dario Strbenac ★ 1.5k

Scholar to ATpoint ★ 4.6k