BBMap/BBTools安装 2023-02-17

BBMap/BBTools官网下载通道
https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/installation-guide/
下载的BBMap_39.01.tar.gz放到软件目录下，执行解压命令

tar -xvzf BBMap_*.tar.gz
...
cd bbmap

测试命令

(base) [user]$ ./stats.sh in=./resources/phix174_ill.ref.fa.gz
A       C       G       T       N       IUPAC   Other   GC      GC_stdev
0.2399  0.2144  0.2326  0.3130  0.0000  0.0000  0.0000  0.4471  0.0000

Main genome scaffold total:             1
Main genome contig total:               1
Main genome scaffold sequence total:    0.005 MB
Main genome contig sequence total:      0.005 MB        0.000% gap
Main genome scaffold N/L50:             1/5.386 KB
Main genome contig N/L50:               1/5.386 KB
Main genome scaffold N/L90:             1/5.386 KB
Main genome contig N/L90:               1/5.386 KB
Max scaffold length:                    5.386 KB
Max contig length:                      5.386 KB
Number of scaffolds > 50 KB:            0
% main genome in scaffolds > 50 KB:     0.00%


Minimum         Number          Number          Total           Total           Scaffold
Scaffold        of              of              Scaffold        Contig          Contig
Length          Scaffolds       Contigs         Length          Length          Coverage
--------        --------------  --------------  --------------  --------------  --------
    All                      1               1           5,386           5,386   100.00%
   5 KB                      1               1           5,386           5,386   100.00%

测试帮助命令，都成功输出了帮助信息

./clumpify.sh -h
./bbnorm.sh -h