Bioconductor AllelicImbalance

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edger allelicimbalance

8.0 years ago ugwu.nelson ▴ 10

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allelicimbalance

updated 8.9 years ago by Jesper Robert Gadin ▴ 20 • written 9.1 years ago by JK ▴ 10

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RNASeq Cancer trio AllelicImbalance RNASeq Cancer trio AllelicImbalance

updated 10.3 years ago by Jesper Robert Gadin ▴ 20 • written 10.3 years ago by Tim Triche, Jr. ▴ 10

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allelicimbalance

updated 8.9 years ago by Jesper Robert Gadin ▴ 20 • written 9.2 years ago by JK ▴ 10

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allelicimbalance getallelecounts

updated 9.2 years ago by Valerie Obenchain ★ 6.8k • written 9.3 years ago by JK ▴ 10

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allelicimbalance

updated 9.3 years ago by Martin Morgan 25k • written 9.3 years ago by JK ▴ 10

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AllelicImbalance

updated 8.5 years ago by lasfol ▴ 10 • written 8.5 years ago by sannysandra93 • 0

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DESeq2 AllelicImbalance edgeR RNASeq

updated 2.9 years ago by Michael Love 41k • written 2.9 years ago by Katya • 0

8 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