Bioconductor Splicing

Showing : splicing • reset

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214

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splicing limma edgeR

updated 4 weeks ago by Gordon Smyth 50k • written 4 weeks ago by scoops_streams_06 • 0

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491

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transcriptome splicing assembly

updated 17 months ago by James W. MacDonald 65k • written 17 months ago by Marianna ▴ 20

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823

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splicing Exon featureCounts subread DEXSeq

23 months ago NIK • 0

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677

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psichomics SUPPA Splicing Alternative Splicing Retained Introns

3.5 years ago noahhelton98 ▴ 20

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2.2k

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edger normalization differential exon usage splicing

updated 3.5 years ago by Yunshun Chen ▴ 840 • written 3.5 years ago by oakhamwolf • 0

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1.1k

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DEXSeq Splicing Exon Usage

4.2 years ago gunjan.dikshit • 0

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1.1k

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ciri splicing splicesites

updated 4.2 years ago by lhddiallo • 0 • written 5.9 years ago by csijst • 0

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817

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junctionseq splicing RNAseq DEXSeq

4.4 years ago stuart ▴ 10

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1.5k

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genomicalignments splicing coverage

updated 4.5 years ago by Michael Lawrence ★ 11k • written 7.1 years ago by rasi1983 ▴ 10

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879

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dexseq splicing sqtl qtl

updated 5.2 years ago by Alejandro Reyes ★ 1.9k • written 5.2 years ago by rtunney2 • 0

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1.7k

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deseq2 splicing

updated 6.0 years ago by Michael Love 41k • written 6.0 years ago by yannickwurm • 0

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1.5k

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DRIMSeq splicing differential isoform usage

updated 7.2 years ago by Gosia Nowicka ▴ 90 • written 7.2 years ago by kristoffer.vittingseerup ▴ 20

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2.6k

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sgseq splicing alternative splicing

updated 8.1 years ago by Leonard Goldstein ▴ 180 • written 8.1 years ago by vakul.mohanty ▴ 10

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1.7k

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microarray splicing

updated 8.2 years ago by Sonika Tyagi ▴ 20 • written 9.5 years ago by gv ▴ 40

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1.5k

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DEXSeq splicing python SAM

8.5 years ago Fiona ▴ 70

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2.1k

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SGSeq analyzeFeatures Splicing

9.4 years ago • updated 9.3 years ago Paolo Guarnieri ▴ 20

16 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

C: when to apply quantile normalization with voom in limma/voom framework with RNA-

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