Tao Zhu

Footprinting for multiple tissues.

5

Thanks for your TOBIAS. Now I have multiple tissues (>15), I want to compare them with footprinting. Is TOBIAS capable of doing such an analysis? Can you give me some...

Please update the SnapATAC for R 4.0 to compatible with seurat 4.0. I also hope you can embed some more plot functions.

Running Error With Integrative Analysis of 10X and snATAC

3

Error in runHarmony.default(obj = x.sp, eigs.dims = 1:22, meta_data = x.sp@sample): eigs.dim is missing Traceback: 1. runHarmony(obj = x.sp, eigs.dims = 1:22, meta_data = x.sp@sample) 2. runHarmony.default(obj = x.sp, eigs.dims...

What the meaning of blacklist?

2

Hi, thanks for your great tools. I am using snapATAC to analyze another species(It's not on the list you provided). I do not know what the meaning of the blacklist?...

ANANSE binding error

1

 This error like [https://github.com/vanheeringen-lab/ANANSE/issues/94](url) And the version is **ananse v0+unknown** 

[BUG] Download error

1

**Describe the bug** When I download the file using the following command, no error is reported, but the file content is empty, only the corresponding SRX folder. **To Reproduce** pysradb...

CUDA out of memory.

1

Very good work. I'm using your data to train the model following your tutorials and I'm running out of memory on the GPU, how can I modify the train.yml file?...

Error in run motifbreakR

1

Thanks for your motifbreakR. I'm trying to run your sample code, but I'm encountering errors in parallel.  Can you give me some help? Thanks 

Stable environment configuration

1

Thank you for your wonderful work, but I often encounter incompatibility between various software when I configure the environment in the way you gave, can you please provide a detailed...

NO basenji_hdf5_single.py in my basenji module.

3

I have installed basenji with conda. But there is NO basenji_hdf5_single.py & basenji_hdf5_cluster.py in my basenji module.