Running and Verification

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Create a test case directory and go to the directory.

   mkdir /path/to/VELVET/testcase
   cd /path/to/VELVET/testcase

3. Upload the downloaded test case file to the directory.
4. Decompress the test case file.

   tar zxvf HMP.small.tar.gz

5. Run the velveth executable file to prepare data.

   velveth out-dir 51  -fasta -shortPaired HMP.small/SRR041654_shuffled.fasta HMP.small/SRR041655_shuffled.fasta

6. Run the velvetg executable file to assemble the genome.

   velvetg out-dir -exp_cov auto -ins_length 260

7. Run meta-velvetg to output the assembly result.

   meta-velvetg out-dir -ins_length 260