Shuangbin Xu

not be compatible with github version of ggplot2

5

Thanks for the great package. But the development version of `ggplot2` has some big (changes)[https://github.com/tidyverse/ggplot2/blob/main/NEWS.md#ggplot2-development-version]. the current version of `ggside` is not compatible with it. ``` > library(ggplot2) > packageVersion('ggplot2')...

doesn't supporting the github version of ggplot2

2

Hello Thanks for the great package. the ggplot2 is a very popular package. `ggupset` seem to be developed based on it. But now `ggplot2` has some significant [changes](https://github.com/tidyverse/ggplot2/blob/main/NEWS.md#ggplot2-development-version). and the...

Thanks for the great package. The github version of `ggplot2` has some significant [changes](https://github.com/tidyverse/ggplot2/blob/main/NEWS.md#ggplot2-development-version). But the current version of `gghalves` is not compatible with it. The request has solved the...

No supporting the ggplot2 github version (>3.3.6)

6

### Description of the issue The next version of `ggplot2` will have some [changes](https://github.com/tidyverse/ggplot2/blob/main/NEWS.md#ggplot2-development-version). But now the `ggalluvial` is not compatible with the version. You can see the following example....

Thanks for the work, I found when the input is `Seurat`, we can obtain the `features.loadings`, but if the input is `SingleCellExperiment`, this is missing ``` > pbmc.sce class: SingleCellExperiment...

The first element of assays in SE might be a matrix when using DESeq2 method

6

The related issue ``` > library(tidybulk) ======================================== tidybulk version 1.12.0 If you use TIDYBULK in published research, please cite: Mangiola et al. tidybulk: an R tidy framework for modular transcriptomic...

How to set random seed using RcppParallel and RcppArmadillo to permutation

1

Good Day I am using `RcppParallel` and the `shuffle` function of `RcppArmadillo` to shuffle `vec`, But the result is not repeatable even I used the `set.seed` of `R` or the...

Can't import the core module

1

**Describe the bug** error in `from pypath.core import network` **To Reproduce** Steps to reproduce the behavior: ``` >>> import pypath >>> from pypath.core import network Traceback (most recent call last):...

Hi Thanks for your work. I want to learn and reproduce the example of the `CARDfree` with the MOB and Mouse hippocampus data in the article. However, I can not...

introduced `keep.contribute.abundance` argument in `mp_import_humann_regroup()` https://github.com/YuLab-SMU/MicrobiotaProcess/commit/6ccd9813547b4c03bd359cb784c771d5d75728ea. #### The default `keep.contribute.abundance = FALSE` only the taxa information was kept. ``` > library(MicrobiotaProcess) MicrobiotaProcess v1.13.2.992 For help: https://github.com/YuLab-SMU/MicrobiotaProcess/issues If you use MicrobiotaProcess...