Lee and Han (2022) currently under review at American Journal of Human Genetics
The codes for running R
code are in the fastrna_r
folder.
The codes for running python
code are in the fastrna_py
folder.
Data can be downloaded following the instruction in the manuscript's Materials and Methods
.
Figure 1
can be produced using *-mouse-organogenesis.ipynb
.
Figure 2
can be produced using *-zhengmix8eq.ipynb
.
Figure 3
can be produced using *-pbmcssc.ipynb
.
Figure 4
can be produced using *-mouse-organogenesis.ipynb
and *-splatter-*.ipynb
.
For all datasets, the matrix files were converted to numpy sparse file format .npz
.
It was because the .npz
format was the fastest to load into memory especially for the mouse embryo organogenesis dataset which was large in size.