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Hello,
I noticed the expression matrix in example_inputs is .npy and .p format. However, my expression matrix is matrix.mtx, barcodes.tsv, and genes.tsv from 10X genomics or matrix.txt with row names (genes) and column names (cells). How could I tranform these format to .npy and .p?
The text was updated successfully, but these errors were encountered:
Hi,
It is best to use the new version of SPRING which is available at
https://github.com/AllonKleinLab/SPRING_dev.
We have an ipython notebook for beginning with 10X data files. Sam do you
mind sending this?
On Sat, Aug 11, 2018 at 10:44 PM, Qiang ***@***.***> wrote:
Hello,
I noticed the expression matrix in example_inputs is .npy and .p format.
However, my expression matrix is matrix.mtx, barcodes.tsv, and genes.tsv
from 10X genomics or matrix.txt with row names (genes) and column names
(cells). How could I tranform these format to .npy and .p?
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.
You should be able follow this example jupyter notebook to build a (new version) SPRING plot from your 10X data. Let us know if you run into any issues.
Hello,
I noticed the expression matrix in example_inputs is .npy and .p format. However, my expression matrix is matrix.mtx, barcodes.tsv, and genes.tsv from 10X genomics or matrix.txt with row names (genes) and column names (cells). How could I tranform these format to .npy and .p?
The text was updated successfully, but these errors were encountered: