Rojin Safavi

error: The file contains an unrecognized object

7

``` import pyreadr result = pyreadr.read_r('infile.rds') ``` ``` --------------------------------------------------------------------------- LibrdataError Traceback (most recent call last) in 1 import pyreadr 2 ----> 3 result = pyreadr.read_r('infile.rds') /projects/sysbio/projects/rojin/anaconda3/envs/scvi/lib/python3.6/site-packages/pyreadr/pyreadr.py in read_r(path, use_objects, timezone)...

VAE

1

Hello, How can I look at the latent space in the pytorch VAE code? I know how to do this in keras, but have not yet figured it out in...

I was wondering if Harmony outputs a transformed matrix?with rows az cells and columns as genes

customized loss function

1

How can I use a customized loss function as the input to the trainer.compile ?

GDC server down, try to use this package later

2

Any reason that I'm gettin this error? I followed your github installation ( in the readme) ` Error in value[[3L]](cond) : GDC server down, try to use this package later...

identifying direct TF targets

2

Hi @cflerin ! I have few questions regarding "direct target identification" I was wondering if you could specify in what step this happens? I followed this tutorial : https://github.com/aertslab/pySCENIC/blob/master/notebooks/pySCENIC%20-%20Full%20pipeline.ipynb I...

I am not getting any output for ```counts_filtered

Thanks for the great tutorial :-) How can I save the encoder model? I know how that can be done in Keras, but not in TF. Basically I would like...

Hi Vahid, Hope you are doing well. I was wondering if you also have DCCAE implementation ( I saw that you referenced it in the main page). Thank you very...

I need to convert a seurat obj to scanpy obj I converted the seurat obj to loomR using as.loom I was wondering what is the correct way of saving this...