Showing : genvisr • reset
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GenVisR - adding on genomic positions to CovGen graph
GenVisR GenCov
3.3 years ago Amy_ • 0
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4.3k
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error in package GenVisR while installing
GenVisR GenVis
updated 2.2 years ago by ▴ 30 • written 3.5 years ago by • 0
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Unable to install GenVisR under most recent R / Bioconductor version; waterfall option mainDropMut is not working
Install mainDropMut GenVisR
updated 3.6 years ago by 16k • written 3.6 years ago by • 0
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How to generate a waterfall plot of mutations and CNAs that don't overlap
GenVisR maftools
3.7 years ago e • 0
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1.7k
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Waterfall failing with custom file: Error in `colnames<-`(`*tmp*`, value = c("sample", "gene", "trv_type")) : attempt to set 'colnames' on an obje…
variants waterfall GenVisR
updated 5.2 years ago by ▴ 30 • written 5.2 years ago by ▴ 10
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1.1k
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Adding layer to legend in waterfall plot
GenVisR ggplot2 waterfall
6.3 years ago sheneicechang • 0
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Output GenVisR mutation frequency data by gene name instead of by sample name
GenVisR mutation frequency R cancer bioconductor
6.4 years ago • updated 6.3 years ago sheneicechang • 0
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1.6k
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how to save picture and add title to waterfall GenVisR mutation analyse?
GenVisr genvisr waterfall mutation
updated 7.1 years ago by ▴ 30 • written 7.2 years ago by • 0
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1.3k
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Issues with lohSpec
genvisr lohSpec
7.5 years ago dharia.priyadarshani • 0
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1.8k
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Copy Number plot cnSpec - how to order samples
genvisr
7.7 years ago cedric.vmdl • 0
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2.9k
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GenVisR- cnSpec CNV plot
GenVisR
8.0 years ago daijieqiong ▴ 10
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1.7k
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an error in TvTi: package GenVisR
GenVisR
updated 9.0 years ago by ▴ 30 • written 9.0 years ago by ▴ 670
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3.5k
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GenVisR Installation error message
genvisR
9.9 years ago Deep Adhya ▴ 20
13 results • Page 1 of 1
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Answer: Array weights in dpcDE by Gordon Smyth 53k
The uncertainty of quantification is fully accounted for in the dpcDE() analysis, including in the computation of sample weights. However,…
Answer: lfc shrinkage estimator in DESeq2 by Michael Love 43k
Try the vignette which has a lot of information on these type of questions.
Comment: limpa analysis advice by Gordon Smyth 53k
The DPC slope is beta1. The estimated slopes for your data look pretty low, lower than I've ever used for a real dataset. Nevertheless, as …
Comment: limpa analysis advice by SamGG ▴ 360
Thanks for your feedback and for reassuring me. :-) As you suggested, I tried dpcCN() and set the slope to 0.7 in addition to the standard…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0
Good point, I hadn't considered the fact quantitative `time` implies a (logit-)linear response *to* time. You're correct that I haven't exp…
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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