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ruanjue / wtdbg2

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
GNU General Public License v3.0
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Change input fastq sequence length cutoff #222

Open zeng22 opened 3 years ago

zeng22 commented 3 years ago

Hi Jue: Your wtbg2 is a very nice tool for PacBio CCS read assembly. However, it seems that reads shorter than 1.2kb are ignored. We have PacBio CCS reads of ~1kb length. Is there any way to change the default input read length cutoff to use shorter reads as input? Thanks.

ruanjue commented 3 years ago

'-L' is the option for read length cutoff. But the length of vertex is 1024bp in FBG, it is the most min cutoff.