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Support for BD formatted mtx files #126

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oskbor opened this issue Oct 1, 2024 · 0 comments
Open

Support for BD formatted mtx files #126

oskbor opened this issue Oct 1, 2024 · 0 comments

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@oskbor
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oskbor commented Oct 1, 2024

BD Rhapsody produces mtx and tsv files, link to BD page

BD mtx vs cellranger mtx:

Column order are the same: feature,barcode,counts
Difference: rows of the mtx from BD are sorted by feature (ascending) first then by barcode for each feature, but cellranger by barcode ascending first then feature(?)
left-bd right-cellranger

BD Rhapsody:

1 1 1
1 2 1
1 3 1
2 1 1
2 2 1
3 1 1

cellranger

1 1 1
2 1 1
3 1 1
1 2 1
2 2 1
1 3 1 

Example BD dataset can be downloaded here

The error I'm seeing when importing BD matrices is usually something like axis 0 index 565 exceeds matrix dimension 57

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