YangLabHKUST
DLPFC dataset
Dear Professor,
Thanks for your explanation and patience! I want to know how can I find the DLPFC dataset in the tutorial:
anno_df = pd.read_csv('./data/spatialLIBD/barcode_level_layer_map.tsv', sep='\t', header=None)
adata_st1 = sc.read_visium(path="./data/spatialLIBD/%d" % slice_idx[0],
count_file="%d_filtered_feature_bc_matrix.h5" % slice_idx[0])
adata_st2 = sc.read_visium(path="./data/spatialLIBD/%d" % slice_idx[1],
count_file="%d_filtered_feature_bc_matrix.h5" % slice_idx[1])
adata_st3 = sc.read_visium(path="./data/spatialLIBD/%d" % slice_idx[1],
count_file="%d_filtered_feature_bc_matrix.h5" % slice_idx[2])
adata_st4 = sc.read_visium(path="./data/spatialLIBD/%d" % slice_idx[1],
count_file="%d_filtered_feature_bc_matrix.h5" % slice_idx[3])
How can I find this dataset, could you provide the link? Since I am a little confused about which dataset, I download the table below: h5_filtered
Do I get the correct dataset?
Thanks in advance!
Best regards, Cristal
Dear Professor，thanks for your explanation and patience! i went to http://spatial.libd.org/spatialLIBD/ download DLPFC dataset, but i dont find where to download this data "/data/spatialLIBD/barcode_level_layer_map.tsv", can you tell me where can get this data or how to generate data?
Dear Professor，thanks for your explanation and patience! i went to http://spatial.libd.org/spatialLIBD/ download DLPFC dataset, but i dont find where to download this data "/data/spatialLIBD/barcode_level_layer_map.tsv", can you tell me where can get this data or how to generate data?
Hi there,
You can find the file at https://github.com/LieberInstitute/HumanPilot/tree/master/10X.
t
Hi there,
You can find the file at https://github.com/LieberInstitute/HumanPilot/tree/master/10X.
Thank you very much and good luck with your research!