Build Functional Profile

To compute the number of reads in a sample mapping to regions involved with Pfam domains, or BLAST or DIAMOND hits, you can run the Build Functional Profile tool by going to:

        Toolbox | Microbial Genomics Module (Image mgm_folder_closed_flat_16_h_p) | Functional Analysis (Image functional_analysis_folder_closed_16_n_p) | Build Functional Profile (Image build_functional_profile_16_n_p)

In the first wizard (figure 13.11), select the read mapping for which you want to build the functional profile.

Image createfunpro
Figure 13.11: Select a read mapping.

The parameters that can be set are seen in figure 13.12:

Image createfunpro1
Figure 13.12: Specify a reference, a GO database and an EC database.

You can then select which output elements should be generated figure 13.13.

Image createfunpro2
Figure 13.13: Specify what type of output you want the tool to generate.

The resulting functional abundance tables store the number of reads corresponding to each Pfam domain, GO term, EC number, best BLAST hit or best DIAMOND hit.