Thank GenoMax.
I saw this interesting post before posting. I was just wondering before trying this if hisat2 can have natively this function since I saw it can trim and 'soft clip' -- which I thought was similar to clipping adapters.
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Clip adapter Hisat2
Hi,
I am processing analysis on reads obtained from ribosome profiling experiments.
I need first to clip adapter before mapping my reads.
This step, however, is very time consuming with fastx_clipper.
I am wondering if there is any other way to it faster, for instance directly into hisat2 would be awesome.
Thanks for your advises,
G
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