Bioconductor Time Series

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deseq2 ruvseq spike-in time course time series

updated 6.4 years ago by davide risso ▴ 950 • written 6.4 years ago by staceyborrego ▴ 20

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3.2k

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limma design model.matrix time series splines

updated 5.3 years ago by Aaron Lun ★ 28k • written 5.3 years ago by tleona3 • 0

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2.2k

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deseq2 time series time course

updated 3.7 years ago by Michael Love 42k • written 3.7 years ago by bsierieb ▴ 10

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1.8k

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rna-seq time series patient limma-voom

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.7 years ago by aec ▴ 90

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1.5k

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limma microarray time series DEG paired

updated 4.6 years ago by Gordon Smyth 50k • written 4.6 years ago by kawess • 0

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868

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transcriptomics gene expression time series plant biology circadian Job

4.6 years ago dezer ▴ 10

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842

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deseq2 rnaseq repeated measures time series design formula

updated 4.3 years ago by Michael Love 42k • written 4.3 years ago by Dorien ▴ 10

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1.3k

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deseq2 time series remove batch effect

5.2 years ago Nicola • 0

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2.0k

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deseq2 Time Series Gene Clustering LRT ATACseq

updated 5.2 years ago by Michael Love 42k • written 5.2 years ago by kaiser.karim • 0

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1.0k

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limma time series help

updated 5.3 years ago by Aaron Lun ★ 28k • written 5.3 years ago by rm1238 • 0

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1.3k

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deseq2 time series multiple factor design

updated 5.4 years ago by Michael Love 42k • written 5.5 years ago by Jane • 0

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667

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scRNA-seq time series

3.8 years ago Bogdan ▴ 670

12 results • Page 1 of 1

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Comment: Help with running egsea() by Chris • 0

I tried egsea.ma and got this error: gsa = egsea.ma(fit2, vector_group, probe_annotation, contrasts = contrast_matrix, gs.annots = gs.…

Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0

Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…

Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k

sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k

I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?

Answer: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k

If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…

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Answer: confused with tximport counts abundance using salmon input

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu

Answer: Extremely small p-values using Limma for proteomic data

Answer: How to save the DEXSeq results

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Popular Question to Gyan Prakash Mishra ▴ 10