Data Source Library
================================
This page lists the current sources available for use in InterMine. All the sources here are found as ready-to-use JARs in the central repository, `JCenter `_.
You can also add your own sources to load custom file formats, see :doc:`/database/data-sources/custom/index` for more information. In addition, the :doc:`/get-started/tutorial/index` contains detailed steps on creating sources for a variety of different data formats.
Most of the configuration done in the config files is optional, if no config entry exists the default behaviour is followed. There are exceptions to this rule, however.
Core InterMine sources
~~~~~~~~~~~~~~~~~~~~~~~~~~~~
These are commonly used sources that you may want to use to load data into your own InterMine instance.
.. toctree::
:maxdepth: 2
go/index
homologues/index
interactions/index
pathways/index
proteins/index
publications/index
.. toctree::
:maxdepth: 1
ncbi-gene
chado
fasta
gff
identifiers/index
intermine-items-xml
omim
organism
so
uberon
data-sources
data-sets
variation/vcf
FlyMine Specific sources
~~~~~~~~~~~~~~~~~~~~~~~~~~~~
These are sources that load Drosophila specific data sets into FlyMine, we don't expect you will re-use these unless you are creating a Drosophila warehouse. All of these sources are located in https://github.com/intermine/flymine-bio-sources.
* affy-probes
* arbeitman-items-xml
* bdgp-clone
* bdgp-insitu
* drosdel-gff
* drosophila-homology
* fly-anatomy-ontology
* flyatlas
* flybase-alleles
* flybase-expression
* fly-development-ontology
* fly-fish
* fly-misc-cvterms
* flyreg
* long_oligo
* miranda
* redfly
* rnai
See `FlyMine `_ for more information about these datasets. Look at FlyMine's `project.xml `_ for examples of how to use these sources.
HumanMine Specific sources
~~~~~~~~~~~~~~~~~~~~~~~~~~~~
* arrayexpress-atlas
* atlas-express
* clinvar
* ensembl-hgnc
* gtex
* hgnc
* hpo
* hpo-annotation
* huge-gwas
* human-gene
* mgi-alleles
* ncbi-summaries
* orphanet
* protein-atlas
See `HumanMine `_ for more information about these datasets. Look at `HumanMine's project.xml `_ for examples of how to use these sources.