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genome-nexus
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genome-nexus-annotation-pipeline
Library and tool for annotating MAF files using Genome Nexus Webserver API
MIT License
8
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25
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Allow not normalizing of bases in the MAF with command line option
#232
inodb
closed
1 year ago
0
Update documentation
#231
leexgh
closed
11 months ago
0
Remove cBioPortal Dependency
#230
Luke-Sikina
closed
1 year ago
1
Fix numbered list
#229
ozguzMete
closed
1 year ago
0
Fix total runtime
#228
ozguzMete
closed
1 year ago
0
Remove spring persistence and improve runtime by increasing default chunk size
#227
ozguzMete
closed
1 year ago
0
Big File Handling
#226
ozguzMete
closed
1 year ago
3
Fix version in MAF header
#225
inodb
closed
1 year ago
1
Rmadupuri tests
#224
ozguzMete
closed
1 year ago
0
Annotation pipeline issues
#223
rmadupuri
closed
1 year ago
10
Fix custom file formatting
#222
ozguzMete
closed
1 year ago
0
Metering
#221
ozguzMete
closed
1 year ago
3
Rename tcga to extended
#220
ozguzMete
closed
1 year ago
0
Document CMD Help
#219
ozguzMete
closed
1 year ago
0
Add more versions in MAF header
#218
inodb
opened
1 year ago
1
Fix redundant exception and help prints
#217
ozguzMete
closed
1 year ago
0
Annotate big mutation file w/o failure
#216
inodb
opened
1 year ago
4
documentation for MAF formats
#215
jagnathan
opened
1 year ago
0
Use post method as default
#214
ozguzMete
closed
1 year ago
0
Add tests for output formats
#213
ozguzMete
closed
1 year ago
0
release 5.0.0 - SV support
#212
averyniceday
closed
1 year ago
0
cleanup
#211
ozguzMete
closed
1 year ago
0
Minimal Output format is similar to TCGA
#210
inodb
opened
1 year ago
0
Add split-output option
#209
ozguzMete
opened
1 year ago
5
Replace apache.lo4j with slf4j
#208
ozguzMete
closed
1 year ago
0
Add tests for MutationRecordProcessor
#207
ozguzMete
closed
1 year ago
0
Account for Genome Nexus Timeout issue - check if all the variants in the MAF are annotated
#206
rmadupuri
opened
1 year ago
0
genome nexus tests to support both hg19 and hg38
#205
jagnathan
opened
1 year ago
3
Add subcommands annotate and merge
#204
ozguzMete
closed
1 year ago
2
MAF file validation
#203
jagnathan
closed
1 year ago
1
vcf2maf test implementation incomplete
#202
jagnathan
closed
1 year ago
0
Use subcommands for command line interface
#201
inodb
opened
1 year ago
0
Convert config.yml to unit tests
#200
ozguzMete
closed
1 year ago
2
Replace log4j imports with slf4j
#199
ozguzMete
closed
1 year ago
0
Output format
#198
ozguzMete
closed
1 year ago
1
Bump mysql-connector-java from 8.0.16 to 8.0.28 in /databaseAnnotator
#197
dependabot[bot]
opened
2 years ago
0
Maf file validation
#196
ozguzMete
closed
1 year ago
1
Unwanted logs while file loading
#195
ozguzMete
closed
1 year ago
0
Custom output format files
#194
inodb
opened
2 years ago
2
Many output errors and warnings when running the minimal example
#193
inodb
opened
2 years ago
2
update cbioportal version
#192
sheridancbio
closed
2 years ago
0
release 4.1.0
#191
dippindots
closed
2 years ago
0
4.0.0 release
#190
averyniceday
closed
2 years ago
0
4.0.0 release
#189
averyniceday
closed
2 years ago
0
update cbioportal commit hash
#188
sheridancbio
closed
2 years ago
0
update to latest cbioportal version
#187
inodb
closed
2 years ago
1
Bump h2 from 1.3.156 to 2.1.210
#186
dependabot[bot]
closed
1 year ago
1
Bump h2 from 1.3.156 to 2.0.206
#185
dependabot[bot]
closed
2 years ago
1
update cbioportal commit hash
#184
sheridancbio
closed
2 years ago
0
test annotator
#183
leexgh
closed
2 years ago
0
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