---
name: "Bio::DB::BioSeqI"
section: "3pm"
platform: "linux"
package: "bioperl"
version: "0.05.1-1"
release: "Debian 2.2 (Potato)"
platforms: ["linux"]
url: "https://new.carta.tech/Bio::DB::BioSeqI"
---

# Bio::DB::BioSeqI(3pm)

Bio::DB::BioSeqI - Abstract interface for a sequence database

```
  #
  # get a database object somehow using a concrete class
  #
```

```
  $seq = $db->get_Seq_by_id('ROA1_HUMAN');
```

```
  #
  # $seq is a Bio::Seq object
  #
```

This is a pure interface class - in other words, all this does is define methods which other (concrete) classes will actually implement.  The Bio::DB::BioSeqI class defines what methods a generic database class should have. At the moment it is just the ability to make Bio::Seq objects from a name (id) or a accession number. Ewan Birney originally wrote this class.\
 **Reporting Bugs** Report bugs to the Bioperl bug tracking system to help us keep track the bugs and  their resolution. Bug reports can be submitted via email or the web:

```
    bioperl-bugs@bio.perl.org
    http://bio.perl.org/bioperl-bugs/
```

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a \_\
 **get\_Seq\_by\_id**

```
 Title   : get_Seq_by_id
 Usage   : $seq = $db->get_Seq_by_id('ROA1_HUMAN')
 Function: Gets a Bio::Seq object by its name
 Returns : a Bio::Seq object
 Args    : the id (as a string) of a sequence
 Throws  : "id does not exist" exception
```

**get\_Seq\_by\_acc**

```
 Title   : get_Seq_by_acc
 Usage   : $seq = $db->get_Seq_by_acc('X77802');
 Function: Gets a Bio::Seq object by accession number
 Returns : A Bio::Seq object
 Args    : accession number (as a string)
 Throws  : "acc does not exist" exception
```