Showing: deseq2 • reset
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DESeq2 outlier flagging with 2 replicates
deseq2 written 2 hours ago by stuart • 0
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Question: DESeqDataSetFromMatrix error: dds file described as <Object with null pointers>
deseq2 written 3 hours ago by liujinghx • 0
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DESeqDataSetFromMatrix error: dds file described as <Object with null pointers>
deseq2 written 3 hours ago by liujinghx • 0
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Removing batch effect with limma::removeBatchEffect() actually exacerbates the effect
limma deseq2 written 12 hours ago by lech.kaczmarczyk • 10 • updated 7 hours ago by Gordon Smyth ♦ 37k
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Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
microarray genefilter limma deseq2 written 14 hours ago by Jurat Shahidin • 60 • updated 7 hours ago by Gordon Smyth ♦ 37k
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Error in function classes fdef mtable unable to find an inherited method for function assay for signature function missing
deseq2 written 9 hours ago by rattray56 • 0 • updated 9 hours ago by Michael Love ♦ 24k
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DESeqDataSetFromTximport gives <Object with null pointer>
deseq2 software error written 13 hours ago by sweissmann • 0 • updated 11 hours ago by Michael Love ♦ 24k
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[DESeq2] sequin [ANAQUIN] correction, too many factors in model
deseq2 ruvseq anaquin sequins written 14 hours ago by chaitra.sathyaprakash • 0 • updated 14 hours ago by Michael Love ♦ 24k
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[DeSeq2] Developmental timeline across seasons with non-independent sampling
deseq2 written 22 hours ago by João Pimenta • 0
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DESeq2 log fold change
deseq2 written 1 day ago by bioinfo • 0 • updated 1 day ago by Michael Love ♦ 24k
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All Pairwise Comparisons with DESeq2 While Controlling for Batch Effects: Does Reference Level Matter?
deseq2 differential expression design batch correction written 6 days ago by wunderl • 20 • updated 1 day ago by Michael Love ♦ 24k
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DESeq2 Interaction Term Interpretation for Microbiome Data
microbiome deseq2 written 1 day ago by ehickman • 0 • updated 1 day ago by swbarnes2 • 200
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DESeq2 analysis with high within-group variability across several groups
deseq2 written 2 days ago by fl • 0 • updated 2 days ago by Michael Love ♦ 24k
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How to add row data to DESeqDataSetFromMatrix
deseq2 written 3 days ago by rattray56 • 0 • updated 2 days ago by Michael Love ♦ 24k
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How can I import data generated from different sources (salmon and gene count matrix) to generate DESeqDataSet object?
deseq2 written 4 days ago by Di Yang • 0 • updated 2 days ago by Michael Love ♦ 24k
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Too many DEGs
deseq2 written 5 days ago by Raymond • 0 • updated 4 days ago by Michael Love ♦ 24k
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DESeq2 GLM modelling and Wald's test
deseq2 written 5 days ago by s.apocarpum • 0 • updated 5 days ago by wunderl • 20
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Batch Correction: DESeq2 Linear Model vs Batch-Correction-Specific Algorithms (RUV, ComBat, ect.)
deseq2 differential expression batch correction written 6 days ago by wunderl • 20 • updated 5 days ago by Michael Love ♦ 24k
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DESeq2 positive results for genes with high samples counts dispersion
deseq2 written 6 days ago by Guillaume Robert • 0 • updated 6 days ago by Michael Love ♦ 24k
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Perform time course rna seq analysis at once with a single design or separate differential analysis for each time point
deseq2 design written 7 days ago by adhikb • 0 • updated 6 days ago by Michael Love ♦ 24k
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Is the data after variance stabilising transformation (blind = FALSE) already corrected for covariates?
deseq2 vst covariates written 6 days ago by Manik Garg • 0 • updated 6 days ago by Michael Love ♦ 24k
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Contrast for DESeq2 design with interaction and blocking factor
deseq2 written 8 days ago by erwan.scaon • 0
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ROC curves using normalized sequencing data from 2 experiments
deseq2 glm proc rocr written 8 days ago by sebastian.lobentanzer • 10
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removing batch effect using DESeq and sva
sva deseq2 heatmap batch effect pca written 8 days ago by bioyas • 0 • updated 8 days ago by Michael Love ♦ 24k
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How should I compare two different RNA-seq datasets using DESeq2 or EgdeR?
limma deseq2 combat written 8 days ago by joseale2310 • 10 • updated 8 days ago by Michael Love ♦ 24k
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