Bioconductor Rna seq

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3.3k

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deseq2 mahattan plot RNA Seq

updated 4.2 years ago by bernatgel ▴ 150 • written 5.2 years ago by adeler001 • 0

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3.9k

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batch effect limma rna seq DE

updated 4.7 years ago by Steve Lianoglou ★ 13k • written 4.7 years ago by svlachavas ▴ 840

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940

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RNA seq cpm

updated 4.7 years ago by Kevin Blighe ★ 4.0k • written 4.7 years ago by isabel.pieterse • 0

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1.2k

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sgseq alternative splicing rna seq

updated 4 months ago by Sara • 0 • written 5.1 years ago by 116100016 • 0

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1.1k

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edger RNA Seq

updated 5.1 years ago by James W. MacDonald 67k • written 5.1 years ago by abf ▴ 30

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654

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rna seq

5.1 years ago adeler001 • 0

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995

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rna seq SGSeq Alternative splicing

updated 5.2 years ago by Leonard Goldstein ▴ 260 • written 5.2 years ago by 116100016 • 0

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673

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deseq2 likelihood ratio rna seq wald test

updated 5.3 years ago by Michael Love 43k • written 5.3 years ago by adeler001 • 0

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1.2k

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volcano plot rna seq

updated 5.3 years ago by Michael Love 43k • written 5.3 years ago by adeler001 • 0

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1.5k

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limma voom RNA Seq Time-course experiments

updated 5.5 years ago by Aaron Lun ★ 28k • written 5.5 years ago by mahes.muniandy • 0

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1.3k

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RNA seq wgcna

updated 5.6 years ago by Peter Langfelder ★ 3.0k • written 5.6 years ago by agustin.gonvi ▴ 20

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2.3k

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rna seq trimmomatic trimming adapter trimming paired analysis

5.6 years ago Mozart ▴ 30

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1.8k

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heatmap.2 hierarchical clustering microarray RNA seq DEG

6.9 years ago lawarde.ankita1 ▴ 30

13 results • Page 1 of 1

Recent ...

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Votes

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

A: Using RSEM reads for DESeq2

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