Dario Strbenac
Dario Strbenac
The multiple sequence alignments in the `data` folder are almost 2 years old. Since then, many new alleles have been discovered and recorded in IMGT/HLA and existing alleles have been...
It seems a waste of information just to get HLA allele identifications from RNA-seq data but not expression quantification. Could the software also output gene- or allele-level quantification, similar to...
It would be nice if there was a Boolean paramteter to enable it to be drawn. Does Masaaki Horikoshi still work on this package?
The legend is missing. species 1 and only the first element will be used Picking a column from the data frame works without a problem. autoplot(prcomp(iris[, 1:4]), data = iris,...
I firstly used the command ``` survivalPlot
Instead of complicated settings such as `list(bs1=-1, bl1=0, bs2=6, bl2=8, us=0, ul=6)`, could there be some convenience settings for end-users (e.g. `experimentType = "Chromium3primeRNAver1"`) based on [manufacturer information](https://support.10xgenomics.com/single-cell-gene-expression/sequencing/doc/specifications-sequencing-requirements-for-single-cell-3)? It would...
The first R output in the vignette is a long list of package loading messages. The R Markdown chunk should have `message = FALSE` in it to avoid the noise....
[Section 8.5](https://christophm.github.io/interpretable-ml-book/feature-importance.html#feature-importance) has > ... we permuted the feature’s values, which breaks the relationship between the feature and the true outcome. However, I think that permutation could rarely end up...
> A general class, allowing for multiple data matrices, is an eSet depicted below. But, from the eSet documentation: > eSet is a virtual class, so instances cannot be created....
I am looking at clinical data for melanoma, but there's too much of it. ```r melanomaMicroRNA