4.5 References To 4.4
Another common annotation related to a sequence is a reference to a journal or other published work dealing with the sequence. ** There is a reference as an annotation for another array. ** **
We have a fairly simple way of representing a Reference in Biopython – we have a Bio.SeqFeature. ** We can represent references in a very easy way. --For example, Bio.Seq Feature ** Reference class that stores the relevant information about a reference as attributes of an object. ** The Reference class can stock bibliographic information. ** **
The attributes include things that you would expect to see in a reference like journal, title and authors. ** The reference attribute contains journal name, title and author information. ** **
Additionally, it also can hold the medline_id and pubmed_id and a comment about the reference. These are all accessed simply as attributes of the object. ** In addition, you can keep comments about medline_id, pubmed_id and references. And it's easy to access like attribute. ** **
A reference also has a location object so that it can specify a particular location on the sequence that the reference refers to. ** Since reference also has location, you can specify the array of referenced documents by location. ** ** For instance, you might have a journal that is dealing with a particular gene located on a BAC, and want to specify that it only refers to this position exactly. ** For example, if a document mentions a particular gene on an artificial chromosome, you can just use location to locate it. ** ** The location is a potentially fuzzy location, as described in section 4.3.2. ** As introduced in 4.3.2, the location may be a fuzzy location. ** **
Any reference objects are stored as a list in the SeqRecord object’s annotations dictionary under the key “references”. ** reference is a list type and is stored in SeqRecord's annotations dictionary type. The key of the dictionary is "references". ** **
That’s all there is too it. References are meant to be easy to deal with, and hopefully general enough to cover lots of usage cases. **It just is the thing. The reference is very easy to use, so I hope it will be useful in many ways. ** **
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