hisat2 refuses to multithread against small reference genome such as sorghum

DaehwanKimLab / hisat2

Graph-based alignment (Hierarchical Graph FM index)

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hisat2 refuses to multithread against small reference genome such as sorghum #211

Open kehey opened 5 years ago

kehey commented 5 years ago

Mapping my SE sorghum dataset against the sorghum index: no multithreading Mapping my SE sorghum dataset against the maize index: multithreading (and way faster)

The only difference being the index (and the size), it seems that multithreading does not work against small references.