Showing : zinbwave • reset
4
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3
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158
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Effect of feature number on adjusted p-values
edgeR DESeq2 single-cell scRNAseq zinbwave
updated 5 weeks ago by ★ 26k • written 5 weeks ago by ▴ 20
0
votes
5
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294
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ZINB-WaVE-DESeq2 with Bulk Data: Choice of Epsilon value, K and gene number
DESeq2 ZINB zinbwave deseq
updated 4 months ago by 33k • written 4 months ago by • 0
0
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0
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100
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contradicting behavior after in low-dimensional representation with zinbwave
zinbwave PCA
8 months ago Assa Yeroslaviz ★ 1.5k
1
vote
4
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239
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How to work with duplicates calculating the differentially expressed genes in PseudoBulk-singleCell RNA experiment using zinbwave?
scRNA zinbwave batch IntegratedData
updated 9 months ago by ▴ 870 • written 9 months ago by ★ 1.5k
3
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3
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228
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Latent factors for differential expression
deseq2 zinbwave 10X scRNA-seq Differential expression
updated 11 months ago by 33k • written 11 months ago by ▴ 20
0
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2
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442
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cmdscale() error: NA values not allowed in 'd', ask for help.
cmdscale zinbwave scRNA-seq single cell sequencing RNA-seq
updated 11 months ago by ▴ 870 • written 12 months ago by ▴ 10
0
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2
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629
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How to overcome negative values obtained from vst for downstream analysis ( calculating bray-curtis and PCoA plot)?
zinbwave deseq2 vegan
updated 19 months ago by 57k • written 19 months ago by • 0
0
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1
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364
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merging RUV-corrected datasets in DESEq
deseq2 glm zinbwave ruvseq
updated 2.5 years ago by 33k • written 2.5 years ago by ▴ 30
8 results • Page 1 of 1
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Answer: DESeq2 for allele-specific expression with contrasts between conditions by Michael Love 33k
There is a section in the vignette on interactions that will help you here. You want to test for within-individual effects (`allele`) and c…
Answer: Issues with Tximport by Michael Love 33k
Your file has no version numbers, while your `tx2gene` does have version numbers. While the names look similar, they are not a match. tximp…
Answer: Using tximeta::summarizeToGene function; Warning message: call dbDisconnect() w by Michael Love 33k
This is fine and ignorable, it is coming from upstream packages: our use of a TxDb object to pull out transcript to gene mappings.
Comment: DESeq2: NA's in mcols(object)$betaConv by Michael Love 33k
They are actually rounded to zero in the `dds` which requires integer values.
Comment: Reading multiple data segments from FCS 3.0 file by Prashant • 0
If I would like to automate this in a function, is there any way or function that can figure out `ndataset` from the .fcs file directly? I …
Votes
Comment: DESeq2: NA's in mcols(object)$betaConv
Answer: Using tximeta::summarizeToGene function; Warning message: call dbDisconnect() w
simultaneous use of robust and weighting methods in limma
simultaneous use of robust and weighting methods in limma
Answer: RUVSeq and Salmon
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