Thiago Britto Borges

New paper on DA for scRNA-seq

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[Single-cell RNA-seq denoising using a deep count autoencoder](https://www.nature.com/articles/s41467-018-07931-2#ref-CR33) > **Denoising enables discovery of subtle cellular phenotypes** > After having evaluated DCA against competing methods, we tested if DCA denoising could...

**Have you checked the [list of proposed rules](https://github.com/Benjamin-Lee/deep-rules/issues?q=is%3Aissue+is%3Aopen+label%3Arule) to see if the rule has already been proposed?** - [x] Yes Many machine learning application tolerate black-box models; however, research in...

Implementation of reactableLang filterPlaceholder for individual columns

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We can now use filterMethod for complex filtering in columns. However, I could not find a away to add a placeholder to explain the different filtering methods for each column....

Crosstalk interface - how to keep selected elements visible/selected?

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Using `reactable` with `plotly::highlight` and `crosstalk::SharedData` as input works like a charm: ```{r} library(reactable) library(plotly) library(crosstalk) shared % plot_ly(x = ~Sepal.Length, y = ~Sepal.Width, color = ~Species) %>% add_markers(alpha =...

### Guidelines - [X] I agree to follow this project's Contributing Guidelines. ### Project Version 0.4.3.9000 ### Platform and OS Version R version 4.2.1 (2022-06-23) Platform: aarch64-apple-darwin20 (64-bit) Running under:...

```{r} ## pre-process the data x

xstreme api

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Do you plan to support the new [xstreme](https://meme-suite.org/meme/tools/xstreme) tool?

Feature Request:Integrate CRIU Checkpointing for Improved Container Initialization

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We are using CRIU (Checkpoint/Restore in Userspace) with ShinyProxy, and it greatly enhances the user because of faster initialization. This achievement was made possible through a method outlined by Sylvain_Brohee...

I am testing the functionality from sra_to_isatab_batch_convert: ```python from isatools.net import sra2isatab DEFAULT_SAXON_EXECUTABLE = '../saxon9he.jar' zipped_bytes = sra2isatab.sra_to_isatab_batch_convert("ERP005654", DEFAULT_SAXON_EXECUTABLE) ``` Which outputs: ``` >> 2024-08-28 13:49:46,368 [INFO]: sra2isatab.py(sra_to_isatab_batch_convert:106) >> This...

I am aware of mergeExternalData that can be used to extend a given FraserDataSet with external data. I am looking for an alternative function that can merge multiple FDS that...