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Blast to EC-number Annotator

TASK
Typing name :  TASK.gws_omix.BlastEC Brick :  gws_omix v Parent : 

BlastEC is an homology based EC-number (Enzyme id) annotator which used Blastp/x and UniProtKB-db.

BlastEC class.

Represents a process that wraps NCBI blast program. This version !!! ALLOWED !!! to get EC numbers for digital twins reconstruction.

Configuration options * taxonomy: Specify the tax group to select the dedicated database. * alignement_type: Alignement type. Prot against Prot database (i.e blastp) or Translated Nucl against prot database (i.e blastx). Respectivly, options = PP, TNP. [Default: PP] ". * num_alignments: Number of database sequences to show alignments for [Default: 10], * evalue: E-value to exclude results. Default = 0.00001 (i.e 1e-5). * threads: Multi threading options: number of threads to use (min=1, max=7). [Default = 1]. * idt: Similarity/identity minimum percentage threshold to exclude results (min= 1, max= 100). [Default = 70]. * cov`: Coverage (see blast option -qcov_hsp_perc) minimum percentage threshold to exclude results (min= 1, max= 100). [Default = 70].

Input

Output

Configuration

taxonomy

Specify the tax group to select the dedicated database

Type : stringAllowed values : fungi 

alignment_type

Optional

Type of alignement to perform : Prot against Prot database (i.e blastp) or Translated Nucl against prot database (i.e blastx). [Respectivly, options : PP, TNP ]. Default = PP

Type : stringAllowed values : PP  TNP  Default value : PP

num_alignments

Optional

Number of database sequences to show alignments for [Default: 10]

Type : intDefault value : 10

e_value

Optional

E-value : Default = 0.00001 (i.e 1e-5)

Type : floatDefault value : 0.00001

threads

Optional

Number of threads

Type : intDefault value : 1

idt

Optional

Similarity/identity minimum percentage threshold to exclude results. [Default = 70]

Type : intDefault value : 70

cov

Optional

Coverage (see blast option -qcov_hsp_perc) minimum percentage threshold to exclude results [Default = 70]

Type : intDefault value : 70