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oncotator
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Issue 326 oxo g fix collapsing
#330
LeeTL1220
closed
9 years ago
5
ONP combining puts "|" separated values in the wrong order
#329
LeeTL1220
closed
9 years ago
3
VCF does not handle "." in a FORMAT ID field (in the header)
#328
LeeTL1220
opened
9 years ago
2
Issue 325 First set of OxoG changes (allowing annotation overwriting and intelligent overwriting in TCGA MAF outputs)
#327
LeeTL1220
closed
9 years ago
10
ONP rendering breaks the OxoG filter (Part II -- field collapsing)
#326
LeeTL1220
closed
9 years ago
4
ONP rendering breaks the OxoG filter (Part I -- re-annotation of TCGA MAF and annotation overwriting)
#325
LeeTL1220
closed
9 years ago
5
Put in a fix for issue 323
#324
LeeTL1220
closed
9 years ago
0
Fix the ``--prepend`` disallowing the AD split
#323
LeeTL1220
closed
9 years ago
0
Issue 314 m2 phasing
#322
LeeTL1220
closed
9 years ago
0
Oncotator : IndexError exception in the middle of the script
#321
vigneshravi
closed
9 years ago
16
MAF To VCF conversion: Need to be able to do the reverse of the M2 aliases
#320
LeeTL1220
opened
9 years ago
0
Issue 313 m2 cli support
#319
LeeTL1220
closed
9 years ago
1
MAF to VCF conversion needs to combine the read count fields into AD
#318
LeeTL1220
opened
9 years ago
0
Small change to ensure 5'Flank annotations show up, new tests added
#317
alexramos
closed
9 years ago
4
HGVS annotation failing for BRCA mutations
#316
alexramos
closed
9 years ago
1
5'Flank not being rendered
#315
LeeTL1220
closed
9 years ago
3
M2 Phasing information needs to be integrated into infer ONP
#314
LeeTL1220
closed
9 years ago
10
M2 VCF to MAF conversion needs a command line and functionality to support it
#313
LeeTL1220
opened
9 years ago
20
Issues still exist in uniprot datasource
#312
LeeTL1220
opened
9 years ago
0
Issue 296 fix uniprot gene entries
#311
LeeTL1220
closed
9 years ago
3
QUAL score in TCGA VCF output is always 50
#310
LeeTL1220
closed
9 years ago
0
Issue 296 fix uniprot gene entries
#309
LeeTL1220
closed
9 years ago
5
Alternate approach for rendering FILTER values when doing VCF --> MAF
#308
alexramos
closed
9 years ago
1
VCF -> MAF FILTER column issue with CRSP
#307
alexramos
closed
9 years ago
0
Changes to the transcript override file format
#306
LeeTL1220
opened
9 years ago
0
Dockerfile updated to add src. Also moved to root of repo dir
#305
alexramos
closed
9 years ago
2
Docker support
#304
alexramos
closed
9 years ago
0
Add feature to handle vcf.gz
#303
erheinbay
opened
9 years ago
0
Uncommented out distribute_setup lines in setup.py
#302
alexramos
closed
9 years ago
1
Issue 300 hotfix
#301
alexramos
closed
9 years ago
0
setup.py install failling in v1.5.2.0
#300
alexramos
closed
9 years ago
1
CLI needs option to allow overriding of existing annotations in input file
#299
alexramos
closed
8 years ago
1
Issue 297 indexed tsv missing overlap hotfix
#298
LeeTL1220
closed
9 years ago
3
IndexedTSV missing regions when configured for overlap
#297
LeeTL1220
closed
9 years ago
0
Poor selection of uniprot entries for some genes
#296
LeeTL1220
closed
9 years ago
0
Added target_* aliases.
#295
LeeTL1220
closed
9 years ago
0
Add new aliases for targets to config files.
#294
LeeTL1220
closed
9 years ago
0
Issue 291 1000genomes bug
#293
alexramos
closed
9 years ago
0
Fix for mishandling of VCF INFO fields of type flag
#292
alexramos
closed
9 years ago
1
New 1000genome_db datasource in Jan262015 corpus crashes VCF output renderer
#291
alexramos
closed
9 years ago
1
Add transcription factor binding site annotation
#290
erheinbay
opened
9 years ago
0
Make territory available from datasource
#289
erheinbay
opened
9 years ago
0
Replace ESP with ExAC
#288
LeeTL1220
closed
8 years ago
1
Issue 286 - Fix "Undefined symbol: compress" on Travis CI
#287
scottfrazer
closed
9 years ago
1
Fix issue with ngslib not building on Travis CI
#286
scottfrazer
opened
9 years ago
0
Possible concurrency condition in initializeDatasource for *_tsv (NOT indexed_tsv)
#285
LeeTL1220
opened
9 years ago
0
Reverse Oncotator
#284
alexramos
opened
9 years ago
1
Why are some protein positions off by one?
#283
LeeTL1220
closed
9 years ago
3
Why is there a transcript coordinate difference between positive and negative strand transcripts?
#282
alexramos
closed
9 years ago
1
Support for b38/hg38
#281
alexramos
opened
9 years ago
8
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