Feature enricher + API

[bwalsh]

Continuation of #91

This additionally includes:

• cgi “collapsed” - now 1073 associations was ~1400 addresses CGI: Some "Biomarker" fields need itemization  #92
  • cgi Associations with more than 1 feature increased from 9.8% to 19.1%
• molecularmatch - harvest driven by condition 'CANCER' vs gene:* yielded more evidence
• API, UI VICC Beacon and RESTful API #85 Add selection for clinical trials sources to Kibana interface #83
• Georgia’s cosmic lookup fix
• index adjusted UI Search Results #89
• from Feature enricher #91: Add coordinates to genomic features #88

Updated files on https://s3.console.aws.amazon.com/s3/buckets/g2p-0.9

cgi 'collapsed', * molecularmatch harvest

report_groups(coord_featured)

Old:
brca: 5717 (100.0%)
cgi: 1423 (99.4%))
civic: 3340 (100.0%)
jax: 5640 (98.0%)
molecularmatch: 1099 (98.3%)
oncokb: 4041 (99.8%)
pmkb: 600 (100.0%)
Total: 21860 (99.3%)

New:

brca: 5717 (100.0%)
cgi: 1065 (99.3%)
civic: 3340 (100.0%)
jax: 5640 (98.0%)
molecularmatch: 2063 (98.9%)
oncokb: 4041 (99.8%)
pmkb: 600 (100.0%)
Total: 22466 (99.3%)

report_groups(multi_featured)

Old:
cgi: 140 (9.8%)
jax: 1797 (31.2%)
molecularmatch: 26 (1.3%)
oncokb: 35 (0.9%)
Total: 1998 (8.6%)

New:

cgi: 205 (19.1%)
jax: 1797 (31.2%)
molecularmatch: 26 (1.2%)
oncokb: 35 (0.9%)
Total: 2063 (9.1%)

UI & API Changes

kibana visualizations

swagger

demo ui

Cosmic lookup fix

**//TODO - GM can you add note?

[bwalsh]

@ahwagner @mayfielg @jgoecks: FYI v0.9 updated and deployed on g2p-test.ddns.net