Bioconductor Hg38

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383

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SeqSQC hg38

updated 7 months ago by James W. MacDonald 66k • written 7 months ago by isml2688 • 0

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706

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hg38 genicannotations

updated 2.7 years ago by James W. MacDonald 66k • written 2.7 years ago by bundo • 0

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1.1k

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Annotation variation HG38

updated 3.5 years ago by James W. MacDonald 66k • written 3.5 years ago by Emanuele • 0

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

updated 4.3 years ago by kayla.interdonato ▴ 160 • written 4.3 years ago by jam526 • 0

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2.4k

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edaseq normalization hg38 biomart org.db

updated 6.5 years ago by davide risso ▴ 950 • written 6.5 years ago by mark.ebbert • 0

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1.6k

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featurecounts hg38

7.0 years ago raf4 ▴ 20

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2.7k

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salmon hg38 tximport tx2gene.csv

updated 7.2 years ago by Michael Love 42k • written 7.2 years ago by seb.boegel • 0

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2.2k

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rsubread ncbi GRCh38 hg38

updated 7.6 years ago by Wei Shi ★ 3.6k • written 7.6 years ago by jan.soderman • 0

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2.1k

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bsgenome hg38 r version 3.1.2

updated 8.7 years ago by James W. MacDonald 66k • written 8.7 years ago by kylvalda • 0

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Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k

You can get the `EnsDb` EnsDb.Taestivum.v112.sqlite (for Ensembl 112/ ensemblgenomes 59) [here](https://www.dropbox.com/sh/msic0luivbldmb7/…

Comment: Errors in chromosome annotation-biomaRt by blackwidowzzz • 0

I recommend using a different dataset specific to your rat genome assembly version 8. You can search for available datasets within Ensembl …

Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 66k

If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …

Comment: Help with ENmix readidat by James W. MacDonald 66k

Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …

Comment: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 66k

In that case, probably easiest to subset to the groups being compared.

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how to control age and gender effect in expression data using DESeq2

Answer: Error retrieving ensembl gene id using biomaRt...

Comment: LRT, more than two conditions and pairwise comparisons

Answer: Control group between 2 batches have different expression in RNAseq data

Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?

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