API::api.cgi Code Documentation

APIconfig::filter_mappings.yaml Code Documentation

APIconfig::query_params.yaml Code Documentation

Articles with Genome Profiles in Progenetix

This page lists all publications for whioch the Progenetix database contains sample-specific genome profiles.

Coordinate use for Beacon Queries

BeaconPlus Changes

CURIE Prefix Remapping - NCIT & PMID

Data Pages

ICD-O 3 Coding

ICD coding of tumor samples

Previous API Examples (Deprecated)

Previous API Notes (Deprecated)

Progenetix API for Biosamples

After some hiatus we have re-started the work on the Progenetix API. The updated version now has functions for accessing sample data using simple filters.

Examples are e.g. the retrieval of sample data in JSON or tabular format, or the counting of samples matching a given parameter.

Progenetix Publication Collection

The current page lists articles describing whole genome screening (WGS, WES, aCGH, cCGH) experiments in cancer, registered in the Progenetix publication collection.

Generating a publication statistics plot using the Progenetix API

Publication Details

Publication Pages

Publication Pages

The SVGs of the callset heatmap plots will now have labels linked to the sample search script, using the datasetIds and callsets.id parameters. Therefore, one can now easily explore the quality of a callset from the heatmap, w/o having to copy/paste/search.

R Integration

Progenetix API and R

With the ability to access the status matrix directly, one easily can import the data into an R data frame:

User File Uploads

pgx Namespace