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load and export methods added#40

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nacharov wants to merge 40 commits intomasterCoronaWhy/task-vt:masterfrom immunology_kgCoronaWhy/task-vt:immunology_kgCopy head branch name to clipboard

+646,624-6

Commits

Commits on May 24, 2020

• load and export methods added

  

  Aleksei Nacharov

  committed
  32550e9

• csv added

  

  Aleksei Nacharov

  committed
  f21245e

Commits on May 27, 2020

• graph overview and format description

  

  Aleksei Nacharov

  committed
  173d259

Commits on May 28, 2020

• graph pre-proccessed by Charlie Hoyt

  

  Aleksei Nacharov

  committed
  c093cee

• pre-processed graph and snipnet for dealing with INDRA added

  

  Aleksei Nacharov

  committed
  49030be

• csv updated

  

  Aleksei Nacharov

  committed
  952029d

• pre-processed graph and snipnet for dealing with INDRA added

  

  Aleksei Nacharov

  committed
  46dd828

Commits on May 31, 2020

• Merge branch 'master' into immunology_kg

  dnsosa

  authored
  67a3de5

Commits on Jun 9, 2020

• added skeleton code

  IlanaL1

  committed
  3357437

Commits on Jun 10, 2020

• initial commit; frauenhofer sentence extraction and cord19 article text content object

  kaleidoescape

  committed
  0d50a48

Commits on Jun 12, 2020

• updated steps for snorkel heuristic labelling

  IlanaL1

  committed
  e369463

Commits on Jun 13, 2020

• processed covid19-annovated.csv to training data

  IlanaL1

  committed
  d428db5

Commits on Jun 14, 2020

• feat(frauenhofer,-spacey): add initial spacy nlp pipeline with RE

  kaleidoescape

  committed
  21d8ce1

Commits on Jun 15, 2020

• feat(spacy): store the char start/end of entities as well

  kaleidoescape

  committed
  b32a460

• feat(requirements): add my environment requirements

  kaleidoescape

  committed
  30c3a3b

• fix(spacy): correctly add start_char/end_char and change start/end to start_token/end_token to avoid ambiguity

  kaleidoescape

  committed
  169ce33

Commits on Jun 16, 2020

• updated with new pybel

  IlanaL1

  committed
  0f7e282

• updated with new pybel

  IlanaL1

  committed
  e7813a6

Commits on Jun 18, 2020

• feat(frauenhofer): add all sentences (not just 0th), convert pmcid to string

  kaleidoescape

  committed
  a59b140

• Merge remote-tracking branch 'origin/immunology_kg' into kaleidoescape_kg

  kaleidoescape

  committed
  d4187c0

Commits on Jun 21, 2020

• feat(frauenhofer): extract seemingly matching entities

  kaleidoescape

  committed
  ad9994d

• feat(frauenhofer): update matched entities format; add more comments in code

  kaleidoescape

  committed
  bf2f65a

Commits on Jun 22, 2020

• feat(frauenhofer): calculate entries where source AND target were matched

  kaleidoescape

  committed
  9304f04

Commits on Jun 25, 2020

• added file

  IlanaL1

  committed
  53d6f20

Commits on Jun 26, 2020

• feat(frauenhofer,spacify): add Entity.namespace; convert sent tokens to str; add doccano integration

  kaleidoescape

  committed
  d9494a4

• fix(spacify): fix dict output key

  kaleidoescape

  committed
  b410259

Commits on Jun 28, 2020

• feat(spacify): only include scientific entities

  kaleidoescape

  committed
  f9c5c15

Commits on Jun 29, 2020

• addded thesuarus and EDA notebokks

  IlanaL1

  committed
  3f42df4

Commits on Jun 30, 2020

• Merge remote-tracking branch 'origin/immunology_kg' into kaleidoescape_kg

  kaleidoescape

  committed
  fe85d3b

Commits on Jul 19, 2020

• added files for generating toy indra covid dataset

  IlanaL1

  committed
  a4e6d43

Commits on Jul 22, 2020

• cleaned script

  IlanaL1

  committed
  ec9f877

• toy dataset

  IlanaL1

  committed
  d16ec0c

Commits on Jul 28, 2020

• filtered toy graph for high belief statements

  IlanaL1

  committed
  1d843bd

Commits on Aug 9, 2020

• added evidence annotations with start/stop locaiton evidence to indra

  IlanaL1

  committed
  0d2cb8e

• added evidence annotation text nlp to indra statements

  IlanaL1

  committed
  a319b18

Commits on Aug 19, 2020

• generated start and stop positions as separate columns

  IlanaL1

  committed
  2e92a32

• updated to include src and target start and stop positions

  IlanaL1

  committed
  44fe040

Commits on Aug 20, 2020

• included dask placeholder code - not working yet

  IlanaL1

  committed
  53ae2b6

• adding indra_df pickle file

  IlanaL1

  committed
  d9586aa

• included dask placeholder code - not working yet

  IlanaL1

  committed
  092eb73