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Describe the bug
I used cell_data from my snRNA seq data (generated independently using the cellranger and not cellranger-arc). This was added to the cis_object that was generated using the atac seq data (generated using the cellranger-arc). The cistopic_obj seemed to have correct mapping of the barcodes but the sample and leiden columns only have NaNs in them:
barcode sample leiden \
GCCTTACTCTAGCTAA-1-d149___d149 GCCTTACTCTAGCTAA-1 NaN NaN
GGACTAAAGCCGCTTT-1-d149___d149 GGACTAAAGCCGCTTT-1 NaN NaN
GCCCGTTGTAATGACT-1-d149___d149 GCCCGTTGTAATGACT-1 NaN NaN
GTGGATGCATAAACCT-1-d149___d149 GTGGATGCATAAACCT-1 NaN NaN
GGTCAGGAGGAACACA-1-d149___d149 GGTCAGGAGGAACACA-1 NaN NaN
... ... ... ...
TAGTGAGAGGGATTAG-1-ls003___ls003 TAGTGAGAGGGATTAG-1 NaN NaN
GGAGCGATCAATTGGC-1-ls003___ls003 GGAGCGATCAATTGGC-1 NaN NaN
GATAAAGGTGGGAACA-1-ls003___ls003 GATAAAGGTGGGAACA-1 NaN NaN
GGAAGTATCGTGCTTC-1-ls003___ls003 GGAAGTATCGTGCTTC-1 NaN NaN
TGAAACTGTGTTTGCT-1-ls003___ls003 TGAAACTGTGTTTGCT-1 NaN NaN
Version (please complete the following information):
Python:3.11
Additional context
Add any other context about the problem here.
The text was updated successfully, but these errors were encountered:
Describe the bug
I used cell_data from my snRNA seq data (generated independently using the cellranger and not cellranger-arc). This was added to the cis_object that was generated using the atac seq data (generated using the cellranger-arc). The cistopic_obj seemed to have correct mapping of the barcodes but the sample and leiden columns only have NaNs in them:
Version (please complete the following information):
Additional context
Add any other context about the problem here.
The text was updated successfully, but these errors were encountered: