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googlegenomics
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dataflow-java
Google Cloud Dataflow pipelines such as Identity-By-State as well as useful utility classes.
Apache License 2.0
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Add integration test for IdentityByState
#177
nitag
closed
8 years ago
2
syncing with upstream repo
#176
nitag
closed
8 years ago
1
Bump utils-java.
#175
deflaux
closed
8 years ago
2
Add integration test for IdentityByState
#174
nitag
closed
8 years ago
5
Add exponential backoff to deletion in CombineShards and also to SeekableGCSStream.
#173
iliat
opened
8 years ago
0
Add BAMDiff to integration test for sharded writing
#172
iliat
opened
8 years ago
0
Bump utils-java to pick up grpc-java bump.
#171
deflaux
closed
8 years ago
1
Bump utils-java.
#170
deflaux
closed
8 years ago
1
Bump utils-java.
#169
deflaux
closed
8 years ago
4
Push HeaderInfo down into utils-java
#168
iliat
opened
8 years ago
0
add --annotationSetName param. Reduce annotation batch size
#167
dionloy
closed
8 years ago
5
Fix parallelism for ReadGroupStreamer.
#166
deflaux
closed
8 years ago
4
Update to handle API reading and optimize sharded writing and indexing
#165
iliat
closed
8 years ago
10
Bump dataflow and grpc (via utils-java) dependencies.
#164
deflaux
closed
8 years ago
4
update DataflowSDK dependency
#163
deflaux
closed
8 years ago
0
Scrub binary files from git history
#162
jiridanek
opened
8 years ago
2
Prepare for debugging of VerifyBamId
#161
deflaux
closed
8 years ago
2
Refactor options.
#160
deflaux
closed
8 years ago
2
Refactor auth.
#159
deflaux
closed
8 years ago
2
Update IdentityByState pipeline to gRPC.
#158
deflaux
closed
8 years ago
2
Switch VerifyBamId to v1 Position objects.
#157
deflaux
closed
8 years ago
1
Confirm that referenceSets for variants and reads match in VerifyBamId.
#156
deflaux
opened
8 years ago
0
Perform additional testing of VerifyBamId.
#155
deflaux
closed
8 years ago
5
Merge VerifyBamId to master.
#154
deflaux
closed
8 years ago
4
Implement fallback CoderProvider.
#153
deflaux
closed
8 years ago
1
Bump utils-java.
#152
deflaux
closed
8 years ago
1
Simplify input to this transform.
#151
deflaux
closed
9 years ago
1
Fix an off-by-one error in the bam Sharder and bam Reader.
#150
jakeakopp
closed
9 years ago
1
Count Reads integration tests update
#149
deflaux
closed
9 years ago
0
Add a v1 version of JoinNonVariantSegmentsWithVariants.
#148
deflaux
closed
9 years ago
2
Refactor read sharding to support streaming of a potentially large number of ReadGroupSets.
#147
deflaux
closed
9 years ago
1
Minor optimization to skip cloning of non-variant segments.
#146
deflaux
closed
9 years ago
1
Upgrade to dataflows 1.1.0 and fix all tests broken by the change.
#145
jakeakopp
closed
9 years ago
2
Bump utils-java.
#144
deflaux
closed
9 years ago
0
Sharded bam writer
#143
jakeakopp
closed
9 years ago
10
Sharded bam writer
#142
jakeakopp
closed
9 years ago
3
Refactor ShardedBAMWriting for easier reuse
#141
iliat
opened
9 years ago
0
Sharded bam writer merge
#140
iliat
closed
9 years ago
10
Fixes for unmapped reads and skipped last loci bug in reading
#139
iliat
closed
9 years ago
0
Update CountReads to unblock upgrade to DataflowSDK 1.0.0
#138
deflaux
closed
9 years ago
3
Bump Dataflow SDK version.
#137
deflaux
closed
9 years ago
2
Bump utils-java version.
#136
deflaux
closed
9 years ago
0
SImple indexing impl
#135
iliat
closed
9 years ago
1
Revert back to string indices for variant similarity.
#134
deflaux
closed
9 years ago
1
Update JoinVariants to unblock upgrade to DataflowSDK 1.0.0
#133
deflaux
closed
9 years ago
1
stop registerGenomicsCoders from filling up the screen with log messages
#132
jean-philippe-martin
closed
9 years ago
1
Refactor some reusable code from dataflow-java to utils-java.
#131
deflaux
closed
9 years ago
0
Shard boundary semantics now supported for gRPC.
#130
deflaux
closed
9 years ago
1
Fixes to sharding
#129
iliat
closed
9 years ago
0
Fixing coder for HeaderInfo
#128
iliat
closed
9 years ago
0
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