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HazyResearch
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dd-genomics
The Genomics DeepDive project
Apache License 2.0
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Canonicalize our own genephenos as well for better comparison with Charite
#303
Colossus
closed
8 years ago
0
Reload Charite automatically, periodically
#302
Colossus
closed
8 years ago
1
Pheno pickup type currently mangled with pheno distant supervision supertype
#301
Colossus
opened
8 years ago
0
All-lowercase pheno acronyms should never be phenos ("also")
#300
Colossus
closed
8 years ago
4
MIM should never be a pheno no matter what the acronym detector picks up
#299
Colossus
closed
8 years ago
0
Holdout set version should be an integer
#298
Colossus
closed
8 years ago
0
Creating new holdout set shouldn't overwrite genpheno_holdout_set table anymore!
#297
Colossus
closed
8 years ago
5
For genepheno labels, remove to join to determine current candidates
#296
Colossus
closed
8 years ago
1
Script to load backuped labels into genepheno_labels database
#295
Colossus
closed
8 years ago
0
Dashboard replacement script
#294
Colossus
closed
8 years ago
1
"Short arm" almost always refers to short arm of chromosome and is picked up as short arm
#293
Colossus
opened
8 years ago
0
Familial Mediterranean Fever is always picked up as fever
#292
Colossus
opened
8 years ago
0
Switch to 1-based CoreNLP indexing
#291
ajratner
opened
8 years ago
0
Charite Pheno Recall Analysis
#290
Colossus
closed
8 years ago
14
Create more evaluation scripts showing false positive/true positive sentences along with information
#289
Colossus
closed
8 years ago
3
Multiple P candidates for multi-word phenotypes being made
#288
ajratner
closed
8 years ago
2
Fix causation extension from general genepheno rules in config.py
#287
Colossus
closed
8 years ago
0
Assign relation_id to genepheno_pairs table as well; otherwise we can't join with genepheno_causation_labels
#286
Colossus
closed
8 years ago
0
Move Github feed to #github channel in Slack
#285
Colossus
closed
8 years ago
0
create_new_gp_holdout_set for specific labeler overwrites other labeler's directories
#284
Colossus
closed
8 years ago
0
Add holdout set version to extract_labels and stats
#283
Colossus
closed
8 years ago
1
Stats scripts: Print precision, recall BY LABELER additionally, not just overall
#282
Colossus
closed
8 years ago
0
Get Mindtagger running again for Chloe
#281
Colossus
closed
8 years ago
1
UPDATE shared DB instead of concatenate new labels
#280
shayanzare007
closed
8 years ago
2
Updating dashboard to the new version of deepdive
#279
ThomasPalomares
closed
8 years ago
1
Youssef pheno rebase
#278
shayanzare007
closed
8 years ago
0
Update Ensembl Genes regularly
#277
Colossus
opened
8 years ago
0
Importing remote labels to DD DB automatically on main data flow
#276
shayanzare007
closed
8 years ago
0
Set up nightly run on master
#275
Colossus
opened
8 years ago
2
Update Charite set (for DS and comparison) regularly
#274
Colossus
opened
8 years ago
0
Filtering negative Gs and Ps in GP is good for precision, but probably not good for recall in the long run
#273
Colossus
opened
8 years ago
0
Thomas improving views
#272
ThomasPalomares
closed
8 years ago
3
Automatically withhold holdout set from pipeline
#271
shayanzare007
closed
8 years ago
19
genomics_for_views: copy onto directory
#270
Colossus
closed
8 years ago
0
Share labels via Greenplum
#269
shayanzare007
closed
8 years ago
1
Move Thomas' own postgres DB to global DB on port 5432
#268
Colossus
closed
8 years ago
0
Remove _holdout_set tables; streamline pipeline
#267
Colossus
closed
8 years ago
0
Create Error Analysis Doc
#266
Colossus
closed
8 years ago
1
False positive errors
#265
Colossus
closed
8 years ago
1
Create Views for util evaluation scripts
#264
Colossus
closed
8 years ago
4
Get Mindtagger + features for error analysis re-set up
#263
ajratner
closed
8 years ago
0
Eval pipeline is documented, but can probably be simplified
#262
ajratner
closed
8 years ago
1
Try with --sample-evidence tag?
#261
ajratner
closed
8 years ago
2
post_match in gene supervision does something weird but def not what it's intended to
#260
Colossus
closed
8 years ago
1
Check numbers returned from _sentences and _fp eval scripts
#259
Colossus
closed
8 years ago
0
False positive genepheno causations classification
#258
Colossus
closed
8 years ago
2
Not all candidates in genepheno_causation are in the inference table genepheno_causation_inference_label_inference
#257
Colossus
closed
8 years ago
2
Gene Vs Protein
#256
Colossus
opened
8 years ago
1
Instead of removing non-gene acronyms, supervise them false
#255
Colossus
closed
8 years ago
1
Add doc_metadata to ddlog
#254
Colossus
closed
8 years ago
1
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