Bioconductor Bitseq

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3.2k

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dexseq bitseq cuffdiff Differential exon usage isoforms

8.9 years ago • updated 8.8 years ago elle ▴ 10

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1.7k

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BitSeq BitSeq

updated 11.5 years ago by Peter Glaus ▴ 70 • written 11.5 years ago by Fatemehsadat Seyednasrollah ▴ 260

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bitseq spliceR

9.0 years ago elle ▴ 10

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BitSeq bitseq rnaseq

updated 8.6 years ago by Ryan C. Thompson ★ 7.9k • written 8.6 years ago by Sam McInturf ▴ 300

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Alignment PROcess BitSeq Alignment PROcess BitSeq

updated 11.1 years ago by Maayan Kreitzman ▴ 30 • written 11.1 years ago by Peter Glaus ▴ 70

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939

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BitSeq

updated 9.0 years ago by Antti Honkela ▴ 50 • written 9.0 years ago by dietmar.pils • 0

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968

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RNASeq BitSeq RNASeq BitSeq

updated 11.2 years ago by Peter Glaus ▴ 70 • written 11.3 years ago by Dave Gerrard ▴ 40

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bitseq paired samples

updated 8.7 years ago by panagiotis.papastamoulis ▴ 30 • written 8.7 years ago by MariaJoseG • 0

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1.1k

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Alignment PROcess BitSeq Alignment PROcess BitSeq

updated 11.1 years ago by Peter Glaus ▴ 70 • written 11.1 years ago by Maayan Kreitzman ▴ 30

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849

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BitSeq BitSeq

11.5 years ago Fatemehsadat Seyednasrollah ▴ 260

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1.5k

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dexseq bitseq spliceR

9.0 years ago elle ▴ 10

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RNASeq safe BitSeq RNASeq safe BitSeq

11.2 years ago Dave Gerrard ▴ 40

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Transcription RNASeq safe BitSeq Transcription RNASeq safe BitSeq

11.2 years ago Peter Glaus ▴ 70

13 results • Page 1 of 1

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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…

Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k

IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…

Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…

Votes

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

Answer: How to retrieve gene ontology GO class from gene list?

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Supporter to JKim • 0