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duplicate barcodes #15

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dm8000 opened this issue Dec 21, 2020 · 1 comment
Open

duplicate barcodes #15

dm8000 opened this issue Dec 21, 2020 · 1 comment

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@dm8000
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dm8000 commented Dec 21, 2020 •
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Hello
In the GSE page, there are cell annotation files such as the "GSM4385990_C141_filtered_contig_annotations.csv.gz" which have duplicate barcodes. How could I match these barcodes to the ones found in the .rds file annotations?

Additionally, it seems this file has a different number of labels compared with "GSM4339769_C141_filtered_feature_bc_matrix.h5". I assumed those were supposed to match. Were the meta.data added after integration and preprocessing?
@zhangzlab
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Please refer to cellranger vdj documentation (https://support.10xgenomics.com/single-cell-vdj/software/pipelines/latest/output/annotation#contig.).

What does "a different number of labels" mean?

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@zhangzlab @dm8000