Bioconductor No replicates

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851

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methylsig no replicates dmr

6.4 years ago nilaycan • 0

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3.5k

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deseq2 without replicate no replicates

updated 6.6 years ago by Michael Love 43k • written 6.6 years ago by Tony • 0

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11k

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deseq2 no replicates high p-adj values

updated 2.4 years ago by Michael Love 43k • written 7.2 years ago by Mahtetie • 0

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2.1k

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rnaseq edger DGE no replicates

7.4 years ago Stefany Solano • 0

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1.4k

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diffhic estimate dispersion value glm no replicates deseq

updated 7.7 years ago by Aaron Lun ★ 28k • written 7.7 years ago by hwick1 ▴ 20

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ATAC differential binding analysis no replicates DEseq2 chromatin

7.8 years ago BioinfGuru ▴ 70

6 results • Page 1 of 1

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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

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

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