User Tools

Site Tools


bioinfo:vsearch

This is an old revision of the document!


VSEARCH

2018년 내 블로그에 썼던 Usearch 맛보기

Dereplication

https://github.com/torognes/vsearch/wiki/Clustering

$ vsearch --derep_fulllength Korea_plus_Delta.trimmed --uc cluster --output derep.fa
vsearch v2.21.1_linu  x_x86_64, 125.7GB RAM, 32 cores
https://github.com/tognes/vsearch

Dereplicating file Korea_plus_Delta.trimmed 100%  
339644176 nt in 11552 seqs, min 29097, max 29796, avg 29401
Sorting 100%
8530 unique sequences, avg cluster 1.4, median 1, max 205
Writing FASTA output file 100% 
Writing uc file, first part 100% 
Writing uc file, second part 100% 

Cluster 정보 파일은 USEARCH의 UC 출력 파일과 같은 정보를 수록하고 있다.

bioinfo/vsearch.1751514937.txt.gz · Last modified: by hyjeong