Bioconductor HG38

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359

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SeqSQC hg38

updated 6 months ago by James W. MacDonald 65k • written 6 months ago by isml2688 • 0

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691

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hg38 genicannotations

updated 2.6 years ago by James W. MacDonald 65k • written 2.6 years ago by bundo • 0

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1.0k

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Annotation variation HG38

updated 3.5 years ago by James W. MacDonald 65k • written 3.5 years ago by Emanuele • 0

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981

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annotation genome hg38 TxDb.Hsapiens.UCSC.hg38.knownGene BSgenome.Hsapiens.UCSC.hg38

updated 4.2 years ago by kayla.interdonato ▴ 160 • written 4.2 years ago by jam526 • 0

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2.4k

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edaseq normalization hg38 biomart org.db

updated 6.4 years ago by davide risso ▴ 950 • written 6.4 years ago by mark.ebbert • 0

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1.5k

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featurecounts hg38

6.9 years ago raf4 ▴ 20

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2.6k

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salmon hg38 tximport tx2gene.csv

updated 7.1 years ago by Michael Love 41k • written 7.1 years ago by seb.boegel • 0

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2.2k

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rsubread ncbi GRCh38 hg38

updated 7.5 years ago by Wei Shi ★ 3.6k • written 7.5 years ago by jan.soderman • 0

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2.1k

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bsgenome hg38 r version 3.1.2

updated 8.6 years ago by James W. MacDonald 65k • written 8.6 years ago by kylvalda • 0

9 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