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orangeSi/ISfinder_database

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ISfiner.step1.py
ISfiner.step1.py
 
 
ISfiner.step2.py
ISfiner.step2.py
 
 
README.md
README.md
 
 
check.empty.py
check.empty.py
 
 

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lastest fasta maybe in https://github.com/thanhleviet/ISfinder-sequences

download database from http://www-genome.biotoul.fr

python3 ISfiner.step1.py step1 python3 ISfiner.step2.py step1.IS.ID.list outdir rm IS.database.tmp.fa find outdir/ -type f -name 'IS*.seq.fa'|xargs -L 1 -I {} cat {} >> IS.database.tmp.fa python3 check.empty.py IS.database.tmp.fa IS.database.fa

IS.database.fa is the fasta database of isfinder

python version dependence

python3

python3 package dependence

Biopython BeautifulSoup requests

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