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UcarLab / AMULET

A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.
https://ucarlab.github.io/AMULET/
GNU General Public License v3.0
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Fragment files as input? #5

Closed caleblareau closed 3 years ago

caleblareau commented 3 years ago

Hi Ucar Lab,

Thanks for the great tool--- have you all tried the statistical approach utilizing the fragments.tsv.gz file as input instead of the .bam file? Do you have any sense off-hand on how it would perform? It'd greatly simplify my workflow as I have several fragments files but not .bam files saved from preprocessing runs.

ajt986 commented 3 years ago

Just released a version that uses the fragment files. It's slightly different than using the bam files, but testing the current version using the the alignments versus the fragment files produced similar results.