search

theislab / scib

Benchmarking analysis of data integration tools
MIT License
294 stars 63 forks source link

mapping_mouse_human.txt file #233

Closed JBreunig closed 3 years ago

JBreunig commented 3 years ago

Might the mapping_mouse_human.txt file be available? I'm not sure if I'm missing it on FigShare or in one of the directories--or perhaps a script generates it? Thanks in advance and excellent work!

LuckyMD commented 3 years ago

Hi @JBreunig, I guess this is the name of the gene ortholog mapping file? I don't think we uploaded that anywhere. @martaint could you make a PR and upload this to scib-reproducibility if I haven't overlooked it somewhere?

JBreunig commented 3 years ago

Thanks! And , yes, that is the gene ortholog mapping file needed in this notebook: scib/notebooks/data_preprocessing/immune_cells/merging/Merging_all_mouse.ipynb

In [17]: mapMouse_Human_orth = pd.read_csv('../mapping_mouse_human.txt', sep='\t') mapMouse_Human_orth.head()

LuckyMD commented 3 years ago

The file was added in #234 and is at: notebooks/data_preprocessing/immune_cells/merging/mapping_mouse_human.txt