Bioconductor Expression

Showing : expression • reset

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2.5k

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expression R filtering limma

2.4 years ago • updated 2.2 years ago mohammedtoufiq91 ▴ 10

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644

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expression variancePartition edgeR

2.5 years ago Jonathan • 0

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1.4k

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microarray quantile expression R Normalization

updated 3.6 years ago by Konstantinos Yeles ▴ 80 • written 3.6 years ago by mohammedtoufiq91 ▴ 10

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1.4k

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GEO expression GEOquery

updated 4.8 years ago by Robert Castelo ★ 3.4k • written 4.8 years ago by lsbew • 0

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2.5k

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RATs RNA-Seq Isoforms DTU expression

updated 5.6 years ago by fruce_ki ▴ 20 • written 5.6 years ago by UserAnonyme • 0

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920

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deseq2 genes expression

updated 5.9 years ago by Michael Love 43k • written 5.9 years ago by UserAnonyme • 0

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4.0k

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rpkm scater calcaverage R expression

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by kushshah ▴ 10

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1.7k

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variance formula expression

updated 6.1 years ago by mikhael.manurung ▴ 280 • written 6.1 years ago by rina ▴ 30

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1.8k

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job sequencing methylation expression Job

10.0 years ago Andy Lynch ▴ 120

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2.1k

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ebayes expression affymetrix pd.hugene.2.0.st limma

updated 10.1 years ago by Gordon Smyth 52k • written 10.1 years ago by Paulo Nuin ▴ 200

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Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k

VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…

Answer: Use of limma R package with targeted proteomics for DE analysis by Gordon Smyth 52k

It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…

Comment: WGCNA by pammelala304 • 0

Thank you for your time and effort. I am so grateful! Play game [block blast](https://blockblastpuzzle.io) free.

Comment: Does anyone have the command to download all of the core_nt using blast_db_get() by Matthew Thornton ▴ 380

Ok. So I guess the core_nt is over 300Gb compressed. I can do it, but maybe it is better to just use ncbi-tools over the internet and just…

Comment: normalizatino of dna methylation EPIC data by user_bioinfo • 0

yes actually that's why I did, and its all good! thank you for your response

Votes

Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu

Answer: normalizatino of dna methylation EPIC data

Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?

Suggesting changing the "reply-to" field to the mailing list address.

Answer: UniProt.ws query for single UniRef90 ID takes several minutes

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