generic-seq#
A generic format,
that like ‘simple-seq’ is
meant to be an abstraction of
any sequence-like format.
The key difference between this format
and 'simple-seq' is that a single file in
'generic-seq' format can contain
annotations for multiple files.
This makes it possible to “translate”
other sequence-like formats with
multiple annotations per file
to 'generic-seq'
(see How to convert any sequence-like format to 'generic-seq'.
By extension,
this format can be used to
produce a single file with annotations
even in cases where the format
is one-annotation-file-per-annotated-file,
which may be helpful for sharing data
or analysis tasks.
The format consists of Annotations,
each with a Sequence made up
of Segments.
These data types can then be saved to a .csv file
(by calling crowsetta.formats.seq.generic.GenericSeq.to_file),
In such a .csv file,
each row corresponds to one Segment.
The annot and seq columns in the row
indicate which Sequence the Segment belongs
to in a given Annotation
(in the vast majority of cases,
there is just one Sequence per Annotation).
The annotations can be loaded with the following class:
crowsetta.formats.seq.generic.GenericSeq.