Cleanadaptors Vs Cutadapt Vs Trim_galore
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5.8 years ago
Shicheng Guo ★ 8.8k

Hi All,

 

Any comments to Cleanadaptors Vs Cutadapt ? Which one is better? Any big difference?

It seems Cleanadaptors can accept whole illumina adaptors and primers as the input (200 adaptors and primers).

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Thanks.

Trim_galore cleanadaptors cutadapt adaptor • 2.0k views
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Test them and see what works best for you!

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5.8 years ago
GenoMax 106k

I like BBDuk from BBMap. Brian Bushnell, developer of BBMap, supplies all common adapters in a single file in the "resources" directory.

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So do I :) Also, my tests indicate that it's faster:

Speed

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5.8 years ago
biofalconch ▴ 480

Also maybe you want to check out Trimmomatic, as far as I know you can feed it a list of adapters to cut as input, as well as other functions.

http://www.usadellab.org/cms/?page=trimmomatic

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