运行和验证

操作步骤

1. 使用PuTTY工具，以root用户登录服务器。
2. 下载测试算例包“POST_GATK_DATA.zip”。
3. 使用SFTP工具将测试算例包上传至服务器“/path/to/TEST”路径下。
4. 执行以下命令解压算例包。

   cd /path/to/TEST
   unzip POST_GATK_DATA.zip

5. 执行以下命令，用XHMM合并GATK覆盖深度输出的多个样本（在同一位点）。

   xhmm --mergeGATKdepths -o ./DATA.RD.txt \
   --GATKdepths group1.DATA.sample_interval_summary \
   --GATKdepths group2.DATA.sample_interval_summary \
   --GATKdepths group3.DATA.sample_interval_summary

   运行结果如下：

   %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
   Command-line parameter values:
   %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
   mergeGATKdepths
   GATKdepths="group1.DATA.sample_interval_summary"
   GATKdepths="group2.DATA.sample_interval_summary"
   GATKdepths="group3.DATA.sample_interval_summary"
   outputMatrix="./DATA.RD.txt"
   %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
   
   Reading GATK depth file group1.DATA.sample_interval_summary
   Reading GATK depth file group2.DATA.sample_interval_summary
   Reading GATK depth file group3.DATA.sample_interval_summary
   Writing GATK read-depth matrix of 30 samples by 300 targets to ./DATA.RD.txt
   
   Total CPU time for processing this job: 6 seconds
   [user time: 6
   system time: 0
   children user time: 0
   children system time: 0]
   Total time for processing this job: 0 seconds

   生成文件：

   DATA.RD.txt