Bioconductor Coldata

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662

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DESeq2 design coldata

updated 6 months ago by swbarnes2 ★ 1.4k • written 6 months ago by arfranco ▴ 130

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789

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ColData pheatmap DESeq2

written 16 months ago by dania.khalid • 0

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1.5k

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SingleCellExperiment colData rename

updated 20 months ago by Basti ▴ 780 • written 21 months ago by achoppe ▴ 10

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710

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BiSeq Coldata

4.4 years ago akhaira • 0

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1.8k

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deseq2 levels factor colData

updated 5.7 years ago by Michael Love 42k • written 5.7 years ago by ariel ▴ 20

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45k

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deseq2 coldata

updated 6.0 years ago by swbarnes2 ★ 1.4k • written 6.0 years ago by mjrarcher ▴ 10

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3.5k

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variantannotation coldata

updated 6.1 years ago by Valerie Obenchain ★ 6.8k • written 6.1 years ago by lvclark ▴ 10

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4.1k

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deseq2 coldata NA

updated 12 weeks ago by Michael Love 42k • written 6.3 years ago by t.kuilman ▴ 170

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1.7k

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multiassayexperiment colData

updated 6.9 years ago by Levi Waldron ★ 1.1k • written 6.9 years ago by Lluís Revilla Sancho ▴ 760

9 results • Page 1 of 1

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Comment: ESTMATE, MCPcounter, EPIC, xCell input by Kang • 0

These are not, as far as I know, bioconductor packages. You should query on the websites for those specific software programs. @[mapquest][…

Comment: Robust way of dealing with low number of samples for Differential Gene Expressio by Kang • 0

I believe that pseudo-bulking is a strong way to approach DE, as long as it is possible to reliably identify the cell type across data and …

Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column by GV Yoshikawa • 0

Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…

Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k

> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…

Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0

I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…

Votes

A: Up/Down Regulated GeneList from edgeR and R

A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis

Answer: Combining RNAseq and microarray data using edgeR/limma-voom

Answer: How do I merge a list of GRanges?

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Teacher to Gordon Smyth 51k

Popular Question to Guido Hooiveld ★ 4.1k