Git Lab CI for docker build enabled! You can enable it using .gitlab-ci.yml in your project. Check file template at https://gitlab.bio.di.uminho.pt/snippets/5

Commit f05aaeae authored by Diogo Batista Lima's avatar Diogo Batista Lima
Browse files

Update README-Template.md

parent 8c24cec0
......@@ -113,24 +113,41 @@ If the user has a file with the same structure as the file used to integrate the
there is no need to repeat preprocessing. If the user only has a newer version of the raw data retrieved from the external source, it is
mandatory to repeat the preprocessing stages (preprocessing=True).
#### Automatic_TRN_Integrator.py
#### debugger.py
#### Gene_Expression_Tools.py
#### ncbi_taxonomy.py
#### Neo4j_injection.py
This module is called by "launcher.py" and loads all process data in the TRN Universal Graph unit of the database. The code is a mix of pure Python with
Cypher (Neo4j's query language) queries, combined through the Python Neo4j Driver package. Being part of the Integration system, the purpose of this script
is to load data in the database, without adding duplicate information and overriding previously loaded data. Each external source has its own set of functions, thus
the loading process was semi-curated.
#### Report.py
The Report system aims to summarize the database's contents. Every node and relationship in the database are analyzed, and the output may be JSON files with requested data
or graphics for quick visualization of the most relevant data.
#### Report_Graphics.py
This module complements "Report.py" and has all code regarding graphics plotting.
#### Request.py
The Request system is an interface connecting users and the database. This module allows extracting data from the database, such as complete Transcriptional Regulatory Networks
for any organism in CSV or XLSX formats.
#### Request_CMD.py
This script's algorithms is the same as in "Request.py", however, the algorithms are integrated in a command line menu, enabling quick and interactive access to the
Request system. To use, simply open the command line, and run the following command:
`<Blueprint_TRN_Repository/code/ python Request_CMD.py`
#### Automatic_TRN_Integrator.py
#### debugger.py
#### Gene_Expression_Tools.py
#### ncbi_taxonomy.py
#### timeout.py
#### uniprot_fetcher.py
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment