Orthologous groups

Orthologous groupsCAZyme domain sequences
正交群体采用CAZyme域序列来运行OrthoMCL程序（http://orthomcl.org/orthomcl/）。这是通过多个步骤完成的，每个步骤如下所述：
1.域FASTA序列根据其家族被分类到文件中。
2.每个FASTA系列文件都使用程序makeblastdb进行了一些BLAST数据库的默认设置。
3.对于每个家族，FASTA文件使用具有默认设置的blastp对同名数据库进行运行，所有输出均为表格。
4.为每个家族运行orthomclAdjustFasta，以家族为标识。

5. orthomclBlastParser是使用步骤3的BLAST结果和从步骤4创建的兼容的fasta文件运行的。
   6.正在运行orthomclInstallSchema，使用默认配置文件，但数据库的登录信息除外。
   7.运行orthomclLoadBlast，使用步骤5中生成的文件。
   8.orthomclPairs使用清理运行。
   9.运行orthomclDumpPairs。
   10.运行mcl mclInput，使用--abc和-I 1.5。
   11.使用从步骤3生成的文件运行orthomclMclToGroups，并从第10步输入文件。
   12.得到的文件给出每个直向同源组在一个单独的行。
   Orthologous groupsCAZyme domain sequences were taken to run OrthoMCL program (http://orthomcl.org/orthomcl/
   ). This was done in a number of steps, each of which is explained below:
6. The domain FASTA sequences were sorted into files based on their family.
7. Each family FASTA file was profiled into a BLAST database using the program makeblastdb with default settings.
8. For each family, the FASTA file was run against the database of the same name using blastp with default settings, with all output being tabular.
9. orthomclAdjustFasta was run for each family, using the family as the identifier.
10. orthomclBlastParser was run using the BLAST results from step 3, and the compliant fasta file created from step 4.
11. orthomclInstallSchema was run, the default configuration file was used, except for the login information to the database.
12. orthomclLoadBlast was run, using the file generated in step 5.
13. orthomclPairs was run with cleanup.
14. orthomclDumpPairs was run.
15. mcl mclInput was run, using --abc and -I 1.5.
16. orthomclMclToGroups was run using the file generated from step 3, and inputing the file from step 10.
17. The resulting file gives each orthologous group on a separate line.