Bioconductor Deseqdataset

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covariate deseqdataset Deseq2 multiple factor design

updated 8.7 years ago by Michael Love 41k • written 8.7 years ago by Lillyhchen ▴ 10

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3.3k

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SummarizedExperiment DESeqDataSet GenomicRanges DESeq2 save

updated 9.2 years ago by Wolfgang Huber ★ 13k • written 9.2 years ago by akaever ▴ 30

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3.8k

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deseq2 deseqdataset transcripts

updated 7.1 years ago by Michael Love 41k • written 7.1 years ago by tarun2 • 0

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summarizedexperiment deseq2 deseqdataset multiple factor design differential gene expression

8.8 years ago Lillyhchen ▴ 10

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8.2k

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DESeqDataSet DESeqDataSetFromMatrix rnaseq deseq2

7.8 years ago ErickF ▴ 40

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deseq2 infrastructure deseqdataset importing

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by eric.blanc • 0

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964

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deseq2 DESeqDataSet

updated 5.1 years ago by Michael Love 41k • written 5.1 years ago by colaneri ▴ 30

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plot heatmap graphical rnaseqgene deseqdataset

9.0 years ago greg.mulhearn • 0

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deseq2 deseqdataset rnaseqgene fastq reference genome

updated 9.0 years ago by James W. MacDonald 65k • written 9.0 years ago by greg.mulhearn • 0

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1.3k

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deseq2 deseqdatasetfrommatrix deseqdataset

updated 6.4 years ago by Michael Love 41k • written 6.4 years ago by jillian.waters • 0

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888

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deseq2 DESeqDataSet

updated 5.9 years ago by Michael Love 41k • written 5.9 years ago by linouhao ▴ 20

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4.0k

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deseq2 bioconductor deseqdataset r summarizedexperiment

7.5 years ago sebastian.lobentanzer ▴ 50

12 results • Page 1 of 1

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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40

1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…

Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0

Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …

Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k

Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…

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Answer: Dominance Index for Shotgun Metagenomics Data

Answer: Math expression in shapeCustom legend in EnhancedVolcano

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length

Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

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