phenopackets/phenopacket-tools

Issues

• VRS schema definitions mismatch

  #196 opened a year ago by v-rocheleau
  3

• Warn about unused resources

  #195 opened a year ago by ielis
  1

• ISO 8601 Age strings should be checked

  #192 opened a year ago by pnrobinson
  0

• Allow to perform simple phenopacket sanitation

  #194 opened a year ago by ielis
  0

• Empty `onset` field in `diseases`

  #186 opened a year ago by yaseminbridges
  1

• Missing `info` field in `VcfRecord`

  #184 opened a year ago by yaseminbridges
  2

• example links broken

  #180 opened a year ago by pnrobinson
  2

• Phenopackets Example links in documentation are broken

  #179 opened a year ago by dontseyit
  2

• `dateOfBirth` field filled in phenopacket conversion

  #177 opened a year ago by yaseminbridges
  5

• UCUM codes should be prefix encoded

  #135 opened a year ago by cmungall
  4

• version 1 vs v2

  #86 opened a year ago by pnrobinson
  2

• Implement element sniffing

  #111 opened a year ago by ielis
  0

• UCUM IRI prefix

  #126 opened a year ago by ielis
  2

• pseudoexfoliation.json has both SNOMEDCT and SCTID namespaces

  #161 opened a year ago by cmungall
  2

• retinoblastoma example has LOINC IDs that lack a prefix

  #162 opened 2 years ago by cmungall
  1

• Broken links on http://phenopackets.org/phenopacket-tools/examples

  #153 opened 2 years ago by nlharris
  2

• some example OntologyClasses lack a namespacePrefix entry in the metadata section

  #147 opened 2 years ago by cmungall
  0

• Many of the CURIEs in the examples have spaces in them, rendering them invalid

  #145 opened 2 years ago by cmungall
  0

• duchenne.json does not conform to specification

  #142 opened 2 years ago by cmungall
  2

• use uniform UCUM encoding (either slash or dot notation but not both)

  #131 opened 2 years ago by cmungall
  0

• Document --convert-variants

  #114 opened 2 years ago by lnrekerle
  1

• Examples page does not resolve

  #148 opened 2 years ago by pnrobinson
  1

• Stabilize the documentation building workflow

  #139 opened 2 years ago by ielis
  1

• mg/dL duplicate

  #129 opened 2 years ago by cmungall
  1

• Remove Assays from constants

  #124 opened 2 years ago by pnrobinson
  1

• Unclear `String identifier` argument for `GeneDescriptorBuilder.builder()` and `GeneDescriptorBuilder.of()`

  #60 opened 2 years ago by ielis
  1

• Ontology validator

  #73 opened 2 years ago by pnrobinson
  4

• Bump JSON Schema version

  #92 opened 2 years ago by pnrobinson
  2

• Introduce exception hierarchy

  #76 opened 2 years ago by ielis
  3

• Setup for the first public release

  #77 opened 2 years ago by ielis
  2

• rareDiseaseValidation

  #71 opened 2 years ago by pnrobinson
  1

• phenopacket-examples w/ error message

  #65 opened 2 years ago by mbaudis
  2

• Pathologic TNM Finding

  #88 opened 2 years ago by pnrobinson
  2

• Build out Reponse constants

  #109 opened 2 years ago by pnrobinson
  1

• Javadoc hosting?

  #90 opened 2 years ago by pnrobinson
  4

• BiosampleConverter

  #55 opened 2 years ago by pnrobinson
  1

• Complete the JSON Schema for GenomicInterpretation

  #63 opened 2 years ago by pnrobinson
  1

• templatize the constants class

  #91 opened 2 years ago by pnrobinson
  2

• Non-private `builder` field in `VariationDescriptorBuilder`

  #59 opened 2 years ago by ielis
  1

• Add `AllelicState` into `org.phenopackets.phenopackettools.builder.constants` package?

  #61 opened 2 years ago by ielis
  1

• ValidationItem

  #81 opened 2 years ago by pnrobinson
  3

• input of phenopacket message from string not working

  #87 opened 2 years ago by pnrobinson
  1

• ErrorType vs ValidationAspect

  #72 opened 2 years ago by pnrobinson
  1

• ValidationMessage

  #80 opened 2 years ago by pnrobinson
  1

• Positions as String

  #67 opened 2 years ago by pnrobinson
  1

• How to code normal finding of x

  #69 opened 2 years ago by pnrobinson
  2

• Add function to initialize PhenopacketBuilder with an existing phenopacket

  #54 opened 2 years ago by pnrobinson
  0

• Add licence

  #53 opened 2 years ago by pnrobinson
  5

• Rename packages to `phenopacket-tools`

  #48 opened 2 years ago by julesjacobsen
  3

• static constructor naming conventions

  #46 opened 2 years ago by julesjacobsen
  6