Showing : des • reset
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DESeq2 inconsistent fits depending on model design with interacting factors
des DESeq2
written 10 weeks ago by ▴ 10
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unreal negative log2fc values
DESeq2 des
updated 15 months ago by 68k • written 15 months ago by • 0
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Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
DESeq2 RUVSeq RUVseq BatchEffect DES
updated 18 months ago by 68k • written 18 months ago by • 0
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Bioinformatics student
Des DESeq2
updated 18 months ago by • 0 • written 18 months ago by • 0
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With DESeq2 "Not full rank" Error with design
DESeq2 DEs
19 months ago feather-W • 0
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Design structure
DESeq2 des
updated 2.9 years ago by 43k • written 3.0 years ago by • 0
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Design Matrix Singularity Error
DES DESIGN
updated 3.1 years ago by 43k • written 3.1 years ago by • 0
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Matrix not full rank (time-series experiment with one group and covariates )
DESeq2 DES
updated 4.8 years ago by 43k • written 4.8 years ago by ▴ 10
8 results • Page 1 of 1
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
Votes
A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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