oncokb/oncokb-annotator

Issues

• UnicodeDecodeError: 'utf-8' codec can't decode byte 0xd4 in position 2270: invalid continuation byte

  #219 opened a month ago by valleyUp
  0

• Add cancer type(OncoTree) validation

  #214 opened 7 months ago by zhx828
  0

• Search specific data version of OncoKB

  #198 opened a year ago by asmmhossain
  4

• Is there an historic of annotaions changes ?

  #196 opened 6 months ago by ZWael
  2

• `INFO:AnnotatorCore:Cancer type for the sample should be defined for a more accurate result.`

  #213 opened 9 months ago by Teezi
  6

• Logical to filter VCFs to OncoKB gene list before annotation?

  #211 opened 9 months ago by SpikyClip
  3

• Oncokb gene symbol/behavior with gene aliases

  #203 opened 9 months ago by pintoa1-mskcc
  5

• Processing VCF files by vcf2maf with OncoKB™ isoforms?

  #212 opened 9 months ago by Teezi
  2

• Using clinical data results in encoding error

  #209 opened 10 months ago by kbrar4013
  0

• Add additional columns when annotating genomic change

  #206 opened 10 months ago by zhx828
  0

• Add descriptions to oncokb-annotator output file

  #199 opened a year ago by calvinlu3
  0

• MAF annotator annotates Likely-oncogenic mutation as Unknown

  #202 opened a year ago by andreyurch
  1

• MafAnnotator annotates intronic mutation as a loss of function

  #201 opened a year ago by andreyurch
  1

• Support VCF - discussion thread

  #197 opened a year ago by zhx828
  1

• Different results page on oncokb.org for HGVSp and HGVSp_Short

  #195 opened 2 years ago by ibrahimkurt
  1

• Conflicting annotations between HGVSp, HGVSp_Short, and Genomic_Change

  #194 opened 2 years ago by ibrahimkurt
  1

• Annotator falsely returns Likely Oncogenic for a splice region variant without HGVSp info

  #192 opened 2 years ago by ibrahimkurt
  4

• Automizing MSI/TMB FDA-approved drug recommendation via API

  #193 opened 2 years ago by ibrahimkurt
  1

• Skip token validation if -u is specified

  #187 opened 2 years ago by zhx828
  0

• open() mode 'rU' invalid mode

  #188 opened 2 years ago by gruenbergera
  1

• Error: Max retries exceeded with url

  #141 opened 3 years ago by zhx828
  3

• Add a max number of variants per POST for HGVSg

  #182 opened 2 years ago by zhx828
  1

• -r parameter ignored?

  #186 opened 2 years ago by vaipathak
  1

• TypeError: __init__() got an unexpected keyword argument 'allowed_methods'

  #185 opened 2 years ago by douglas-hoen
  1

• Support HGVSC annotation through API

  #157 opened 3 years ago by pegasusCN
  2

• Support additional SV headers && Test annotations for INTRAGENIC_DUPLICATION INTRAGENIC_LOSS

  #183 opened 2 years ago by zhx828
  2

• Flake8 warnings

  #178 opened 2 years ago by zhx828
  0

• Support resistance mutation in oncokb-annotator

  #180 opened 2 years ago by zhx828
  0

• none oncogenic mutation was annotated as oncogenic mutation

  #159 opened 2 years ago by summerghw
  4

• Blank results for annotation

  #139 opened 2 years ago by xiw588
  4

• INFO:MafAnnotator:For help: python MafAnnotator.py -h

  #171 opened 2 years ago by huwenhuo
  0

• Annotation tests should cover all level of evidence

  #167 opened 2 years ago by zhx828
  1

• Add annotation columns using clinical annotator

  #156 opened 2 years ago by zhx828
  1

• MafAnnotator (and the others too, probably) silently fails when token is expired

  #146 opened 2 years ago by fd-oncodna
  5

• Alteration content

  #169 opened 2 years ago by pegasusCN
  1

• We should calculate the HIGHEST_LEVEL column also using resistance level

  #154 opened 2 years ago by zhx828
  0

• Count resistance as oncogenic in the ONCOGENIC_MUTATIONS column

  #152 opened 2 years ago by zhx828
  1

• Support StructuralVariant annotator

  #155 opened 2 years ago by zhx828
  2

• Support retry for API calls

  #153 opened 2 years ago by zhx828
  0

• [Security] Workflow release-management.yml is using vulnerable action toolmantim/release-drafter

  #147 opened 3 years ago by Freakston
  0

• Having different annotations from different query type on the same mutation

  #148 opened 3 years ago by ZWael
  1

• multiple var depend durgs

  #150 opened 3 years ago by summerghw
  1

• Error while running FusionAnnotator

  #126 opened 3 years ago by snashraf
  5

• can get web api version?

  #136 opened 3 years ago by jeongmeani
  2

• Different results from api when using GET or POST

  #149 opened 3 years ago by pegasusCN
  2

• Definition of functional fusion?

  #143 opened 3 years ago by pegasusCN
  4

• Shorten the annotation test dataset

  #137 opened 3 years ago by zhx828
  0

• MafAnnotator.py gives error "AttributeError: 'ProteinChangeQuery' object has no attribute 'proteinStart'" when input MAF contains non-coding mutations and -q "HGVSp" is specified

  #124 opened 3 years ago by bkinnersley
  2

• MafAnnotator incorrectly labels genes based on alternate gene symbols

  #125 opened 3 years ago by sprokopec
  3

• Annotator issue reported by user

  #127 opened 3 years ago by zhx828
  0