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ZijieJin / scFusion

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Will the pipeline support 10X bam files? #21

Closed jwweii closed 2 months ago

jwweii commented 7 months ago

Hi Zijie,

Thanks for this useful package! I am wondering will the pipeline support 10X bam files in the future? If not, could I just modify the STAR arguments to align with the needs of 10X bam file and then continue your pipeline?

Thanks, Evan

ZijieJin commented 7 months ago

Hi Evan,

10X data is not suitable for detecting gene fusions, so I do not recommend you modifying the pipeline. For detecting gene fusions, please use bulk sequencing data or Smart-seq data.