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isfinder_database's Introduction

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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