magpurify2 1.0.2

通过识别和去除污染物序列，以易于使用和模块化的命令行界面提高宏基因组组装基因组的质量。

您可以在MAGpurify2的网站上找到完整的文档。

快速入门

下载测试数据

fileId="1-Gf-FsVIcARqrUb-LHS_FZlb-sCGAmfo"
fileName="magpurify2_test_data.tar.gz"
curl -sc /tmp/cookie "https://drive.google.com/uc?export=download&id=${fileId}" > /dev/null
code="$(awk '/_warning_/ {print $NF}' /tmp/cookie)"
curl -Lb /tmp/cookie "https://drive.google.com/uc?export=download&confirm=${code}&id=${fileId}" -o ${fileName}
tar zxfv magpurify2_test_data.tar.gz

下载数据库

fileId="1ooWiR3LplBy5GsY5wZ7o6dwswiCWVvmi"
fileName="magpurify2DB.v1.0.tar.gz"
curl -sc /tmp/cookie "https://drive.google.com/uc?export=download&id=${fileId}" > /dev/null
code="$(awk '/_warning_/ {print $NF}' /tmp/cookie)"
curl -Lb /tmp/cookie "https://drive.google.com/uc?export=download&confirm=${code}&id=${fileId}" -o ${fileName}
tar zxfv magpurify2DB.v1.0.tar.gz

执行管道

magpurify2 composition test_data/genomes/* output
magpurify2 coverage test_data/genomes/* output --bam_files test_data/bam_files/*
magpurify2 taxonomy test_data/genomes/* output magpurify2DB
magpurify2 filter test_data/genomes/* output filtered_genomes