milescsmith / s2a

Seurat to AnnData conversion

s2a

Functions to aid in converting Seurat objects to AnnData objects

s2a's Issues

Installation?

Greetings,

Thanks for putting this together.
I followed the installation from https://rdrr.io/github/milescsmith/s2a/:

install.packages("remotes")
remotes::install_github("milescsmith/s2a")

However, when I try to load the library, I get an error:

> library(s2a)
Error: package or namespace load failed for ‘s2a’:
 .onLoad failed in loadNamespace() for 's2a', details:
  call: py_module_import(module, convert = convert)
  error: ModuleNotFoundError: No module named 's2a'
> 

Is there a python module to also install?

Thanks!
JP

anndata2ri

Hi, primary AnnData author and anndata2ri author here. Cool project!

Is there any comparison of the features of SeuratObject, SingleCellExperiment and AnnData? We should work together to not lose anything the respective other has.

Also check out theislab/anndata2ri#8. I spent way too much time compiling this information to not share it

Error in py_call_impl(callable, dots$args, dots$keywords)

it's an impressive package to convert structure from Seurat to Anndata. But recently, when I used convert_to_anndata implmented in s2a. I got errors as following:

Error in py_call_impl(callable, dots$args, dots$keywords) :
  ValueError: The truth value of an array with more than one element is ambiguous. Use a.any() or a.all()

Detailed traceback:
  File "/home/user/.local/lib/python3.6/site-packages/s2a/convert.py", line 76, in add_reduction
    if feature_loadings and feature_loadings.size > 0:

Can you help me work it out?
Thanks a lot