rotifer.db.sql.sqlite3#
Fetch gene neighborhoods and identical protein group reports from local SQLite3 databases.
The databases queried here are built by other rotifer tools (for
example, by caching batches downloaded through
rotifer.db.ncbi) and follow a fixed schema: a features
table of genome annotation rows and, optionally, a nr table of
non-redundant sequence clusters. This module never contacts the
network; all cursors here only read and write the SQLite3 file
given as path.
Classes
|
Shared connection and query helpers for SQLite3 cursors. |
|
Fetch gene neighborhoods cached in a local SQLite3 database. |
|
Fetch identical protein group (IPG) reports from a local SQLite3 database. |