Lambda Moses

Feature request: Download R code used to reproduce the plots

1

Thanks for the package. It would be nice to be able to save the R code used to make the plots in the shiny app to make the plots more...

Vignette translating between base R and purrr

1

Fixes #726

Barcode length is changed in 10xv1

12

I tried to process a the pbmc3k dataset from 10x v1 chemistry with kallisto bus (version 0.46.0), and got into some problems. Since the dataset is is a different format...

SFEData, SpatialFeatureExperiment, and Voyager

35

Update the following URL to point to the GitHub repository of the package you wish to submit to _Bioconductor_ - Repository: https://github.com/pachterlab/SFEData Confirm the following by editing each check box...

version field duplicated in int_metadata after concatenating two SCE objects

4

I don't think this affects the users, but I found out this issue when writing a `cbind` method for a class that inherits from SCE and it caused a unit...

Remove cells from loom objects

1

In Seurat, we can filter and remove cells that don't meet certain conditions. I read the loom class documentation and found a function that can add cells. But is there...

Operating on loom files in parallel

1

I read in your source code that there're lots of for loops when validating matrices, layers, and attributes while those can be parallelized, and often chunk based operations on matrices...

…fixed progress bar in case there're multiple matches to a string pattern. I have been working with loom objects with Seurat recently. From Seurat, the PCA cell embeddings and tSNE...

argument "httr_config" is missing, with no default in useMart() call for archival versions

3

I'm the maintainer of the Bioconductor package BUSpaRse, which uses biomaRt. Today, I got an error from the build of the devel version from a call of `useMart()` for archival...