Showing : ruvnormalize • reset
2
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Decide normalisation method in RUVseq for RNAseq data
edger ruvseq rnaseq normalization ruvnormalize
updated 6.8 years ago by ▴ 950 • written 6.8 years ago by • 0
2
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1
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1.2k
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naiveRandRUV Error When k is 1
RUVNormalize Subsetting
updated 8.8 years ago by ▴ 10 • written 8.9 years ago by ★ 1.5k
2
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9
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2.5k
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Zero inflation in RUV normalization and DE for single cell data
ruv ruvseq ruvnormalize single-cell zero-inflated
updated 6.7 years ago by ▴ 950 • written 6.7 years ago by ▴ 80
2
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6
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1.4k
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effect of polyploidy level on RUVs normalisation
normalization ruvseq ruvnormalize ruvs eda
8.0 years ago thomas.wolfe • 0
2
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1
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1.5k
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RUVSeq empirical negative controls? how many to take to find the span set
ruvseq RUV ruvnormalize ruvg
7.8 years ago anthonycolombo60 • 0
1
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3
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2.2k
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Does it make sense to consider RUVr normalization for single cell RNA analysis?
RUV ruvseq ruvr ruvnormalize single cell
6.7 years ago Nik Tuzov ▴ 80
1
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1
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1.3k
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RUVnormalize- should input be pre-normalized?
ruvnormalize microarray normalization
updated 8.8 years ago by ▴ 10 • written 8.9 years ago by ▴ 110
1
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2
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832
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Removing Unwanted Variations
DESeq2 NanoStringNCTools RUVnormalize RUVSeq DifferentialExpression
12 months ago AZ ▴ 30
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2
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996
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RUVnormalize- How to output a corrected expression matrix without negative values to use for DEG analysis(i.e. limma) ?
RUVnormalize limma corrected expression matrix microarray
updated 6.3 years ago by ★ 1.5k • written 6.3 years ago by • 0
0
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1
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615
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Is RUVnormalize applicable to small dataset?
RUVnormalize protein mi
5.5 years ago losik • 0
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4
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2.1k
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Confused about using RUVg in getting negative control genes using RUVg
RUVnormalize R edgeR RUVSeq RUVnormalizeData
22 months ago Mohamed ▴ 30
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0
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1.3k
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Technical Replicates and RUVs Normalisation
rnaseq ruvnormalize normalization technical replicates
8.4 years ago thomas.wolfe • 0
12 results • Page 1 of 1
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Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123 by Gordon Smyth 50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! I'll review my code from top to bottom.
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Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
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