alec0123321/kegg_get_aa

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---
__Get gene sequence and clustering from KEGG__  

__Author: Alec Wang__  

__Date: 2018.01.22__  

__version: 2.0__  
---

• require install vsearch - clustering tool

---

folder structure

js	sample
get_seq.js	f_gene_list.txt
vsearch.js
after_cluster.js
11_get_cluster_seq.js

after folder structure

js	sample	result
get_seq.js	f_gene_list.txt	after_cluster(folder)
vsearch.js		your_gene_list.txt
after_cluster.js		cluster(folder)
11_get_cluster_seq.js		otu_table(folder)
		uc(folder)
		full_seq.fa

get_seq.js

generate

seq_list/full_seq.fa

vsearch.js

ask for naming file name for result file do clustering generate

result/alignment result/cluster result/otu_table result/uc

all file name are your naming file name in alignment and cluster file are .fa in otu_table and uc file are .txt

after_cluster.js

ask for file name from result/uc generate

result/after_cluster

cluster_/cluster_.fa

it's after cluster's sequence list in individual field

after_cluster_2.js, after_cluster_3.js are testing file

1_get_cluster_seq.js

require 1 parameter

for example 1_get_cluster_seq.js 0

it will do the work from result/after_cluster/cluster_0/cluster_0.fa

generate

result/after_cluster/cluster_0/cluster_0_seq.fa