e0c189909f
Added support for breakpoint alleles
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-- See https://getsatisfaction.com/gsa/topics/support_vcf_4_1_structural_variation_breakend_alleles?utm_content=topic_link&utm_medium=email&utm_source=new_topic
-- Added integrationtest to ensure that we can parse and write out breakpoint example
2012-02-23 12:14:48 -05:00
ed91461c49
Data Processing Pipeline Test
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* Added standard pipeline test for the DPP
* Added a full BWA pipeline test for the DPP
* Included the extra files for the reference needed by BWA (to be used by DPP and PPP tests)
2011-12-12 00:24:51 -05:00
cca8a18608
PPP pipeline test
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* added a pipeline test to the Pacbio Processing Pipeline.
* updated exampleBAM with more complete RG information so we can use it in a wider variety of pipeline tests
* added exampleDBSNP.vcf file with only chromosome 1 in the range of the exampleFASTA.fasta reference for pipeline tests
2011-12-11 17:32:21 -05:00
714cac21c9
Testdata for IntervalStratification
2011-11-10 11:08:34 -05:00
a3c5a31686
Oops, forgot the PED test file
2011-10-05 21:09:08 -07:00
c6ba944719
Adding bgzip vcf file for unit tests
2011-09-21 15:39:45 -04:00
bc902e8421
GZIP VCF for testing
2011-08-19 09:05:39 -04:00
449bf1b539
Testdata for diffObjects.
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PipelineTest updated to point to MD5DB.java
2011-07-18 10:47:03 -04:00
38740b0ff5
First working version of the DiffNode readers for VCF and BAM files. Unit tests confirm the readers are approximately working. Skeleton of a working DiffObjects walker that will be able to provide detailed information about how exactly two files of the same type differ, so long as the files are supported by the DiffNode structure.
2011-07-04 16:11:42 -04:00
3c9497788e
Reorganized the codebase beneath top-level public and private directories,
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removing the playground and oneoffprojects directories in the process. Updated
build.xml accordingly.
2011-06-28 06:55:19 -04:00
Mark DePristo
Mauricio Carneiro
David Roazen