Bioconductor Ensembl release

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ensembldb ensembl release rnaseq salmon tximport

7.1 years ago emmak ▴ 20

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txtimport deseq2 ensembl release

updated 7.9 years ago by James W. MacDonald 68k • written 7.9 years ago by jarod_v6@libero.it ▴ 40

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ensembl biomart ensembl release ensembl mart News

8.4 years ago Thomas Maurel ▴ 800

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ensembl biomart release85 ensembl release mart News

8.7 years ago Thomas Maurel ▴ 800

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ensembl mart release84 biomart ensembl release News

updated 8.9 years ago by arielpaulson ▴ 20 • written 9.0 years ago by Thomas Maurel ▴ 800

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ensemble mart ensembl biomart ensembl release News

9.3 years ago amonida ▴ 20

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Answer: Use of org.Rn.eg.db with GRCr8 reference genome by James W. MacDonald 68k

You've got it backwards. It should be ``` adult_res_df$symbol <- mapIds(org.Rn.eg.db, keys = rownames(adult_res_df), column = "ENSEMBL"…

Comment: DESeq2 swap ensembl gene id rownames with gene symbol column by Erika • 0

Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…

Answer: Clarification on GOALL / GO2ALLORFs mapping by James W. MacDonald 68k

It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…

Comment: Can't post a question? by DavideSant • 0

Thank you, this was super useful!

Comment: Error in retrieving clinical data by silickas • 0

Thank you for the reply. I will try to do that next time. This time instead, I used the GenomicDataCommons package to download clinical dat…

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Comment: Can't post a question?

Answer: Limma - Complex 2-way multi-level contrast with paired samples

Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks

Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression

Answer: Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malf

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