Bioconductor Filter

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filter deseq2

updated 12 months ago by Michael Love 41k • written 12 months ago by PD • 0

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R filter limma Normalization Microarray

12 months ago Abdul ▴ 20

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filter gate_quad_tmix gt_gating

2.1 years ago • updated 24 months ago Pierre • 0

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flowCore openCyto Summary Result Filter

updated 4.0 years ago by Jake Wagner ▴ 310 • written 4.1 years ago by noviello • 0

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RNA WGCNA filter

4.8 years ago modarzi ▴ 10

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filter deseq2

updated 5.1 years ago by Michael Love 41k • written 5.1 years ago by charles.foster ▴ 160

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rtracklayer gff filter

updated 5.2 years ago by Michael Lawrence ★ 11k • written 5.2 years ago by alslonik • 0

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deseq2 filter genefilter

updated 6.4 years ago by Michael Love 41k • written 6.5 years ago by Björn • 0

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loop filter

written 6.4 years ago by kritikamish99 ▴ 10

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DGElist filter edgeR

updated 6.8 years ago by Gordon Smyth 50k • written 6.8 years ago by alakatos ▴ 130

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limma filter genelist differential gene expression

updated 7.5 years ago by Gordon Smyth 50k • written 7.5 years ago by bi_Scholar • 0

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missing data filter

updated 8.4 years ago by James W. MacDonald 65k • written 8.4 years ago by rgescudero • 0

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flowcore gate subsetting filter

updated 8.6 years ago by Jiang, Mike ★ 1.3k • written 8.6 years ago by peterfoster ▴ 20

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probe filter subset gene symbol affy

9.1 years ago alakatos ▴ 130

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bioconductor mas5 perfectmatch affymetrixchip filter

updated 9.2 years ago by James W. MacDonald 65k • written 9.2 years ago by svlachavas ▴ 830

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deseq filter reads

9.3 years ago ccheung • 0

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variantannotation vcf fixed filter

9.3 years ago Anna N. • 0

17 results • Page 1 of 1

Recent ...

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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k

> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …

Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10

With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Votes

A: How to know if I should use voomWithQualityWeights() or not?

A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom

Answer: Log-cpm values from limma

Awards • All

Supporter to Jonathan ▴ 10