New versions of packs bio_db (v4.2), bio_db_repo (v.23.6.5) and bio_analytics (v.06)
are now available on the pack server.
-
bio_db
is a pack serving high quality biological relations- such as gene to protein relation within a specific organism. It contains the table definitions and code for serving the data. The data reside with pack(bio_db_repo).
Currently there are 103 data tables serving 74,674,860 records.
v4.2 includes data from the pig genome
(in addition to human, mouse and chicken from v4.1) -
bio_db_repo
contains fact bases for the bio_db tables. The current .tgz is about 0.5Gb.
It is not necessary to install the whole package.
Instead, bio_db will interactively install only the tables needed on demand.
The data are published about twice a year. -
bio_analytics
is a pack that implements some bioinformatics tasks based on tables in pack(bio_db)
and heavily relying on pack(Real) to pass data to underlying R functions.
?- use_module( library(bio_db) ).
and
?- use_module( library(lib) ).
?- lib(bio_db).
links:
(ICLP 2019 paper): [1909.08254] Advances in Big Data Bio Analytics
http://stoics.org.uk/~nicos/packs/sware/bio_db
GitHub - nicos-angelopoulos/bio_db: Access, use and manage big, biological datasets.
http://stoics.org.uk/~nicos/packs/sware/bio_analytics