Showing : michael love • reset
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DESeq2 time course with two genotypes
deseq2 timecourse michael love multiple time points
5.2 years ago cp1015 • 0
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4
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DESeq2 Design Formula
DESeq2 michael love
updated 6.0 years ago by 43k • written 6.0 years ago by ▴ 10
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DESeq2 PCA plotting
deseq2 michael love
updated 6.1 years ago by 43k • written 6.1 years ago by • 0
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11
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1.9k
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Need help with DESeq2's contrast feature
deseq2 michael love
updated 6.3 years ago by 43k • written 6.3 years ago by ▴ 10
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DESeq2 for time series using time as continuous and looking at effect of time on DE
deseq2 timecourse multiple time points mlr michael love
updated 6.5 years ago by 43k • written 6.5 years ago by • 0
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Constructing tx2gene for Salmon txImport Quantification using Gencode Mouse Transcript Annotation
Michael Love Salmon tximport tx2gene
updated 6.8 years ago by 43k • written 6.8 years ago by ▴ 30
6 results • Page 1 of 1
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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…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
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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