DaehwanKimLab / hisat2

Graph-based alignment (Hierarchical Graph FM index)
GNU General Public License v3.0
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Align ATAC-seq with Hisat2? #409

Open yjiang296 opened 1 year ago

yjiang296 commented 1 year ago

Hello! I would like to align my ATAC-seq to a graph genome, and I'm wondering if I can do with hisat2. How do bowtie2 and hisat2 perform differently in this circumstances? Hoping to hearing from you, thanks!