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## Bug Report
### Affected tool(s) or class(es)
GenomicsDBImport
### Affected version(s)
- [ ] Latest public release version [version?]
- [x] Latest master branch as of Apr 4, 2022
### De…
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I created a genomicsDB array using the VCF importer and [this VCF](https://github.com/hail-is/hail/blob/master/src/test/resources/sample2.vcf). I then used a GenomicsDBFeatureReader to iterate over th…
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Hello,
The dependencies commons-io:commons-io, com.google.guava:guava and org.apache.commons:commons-lang3 (test scope only for the last one) are missing in pom.xml, whereas they are needed by some…
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In BCF, the Character/String type does not have MISSING or EOV encoding given in the spec. htslib and GenomicsDB define MISSING and EOV for String/Character to be `0x07` and `0x00` respectively, but h…
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Hi Nalini,
I was playing around with this package. Thanks a lot providing these R bindings! Much appreciated.
Do you have by any chance an example for iterating through a GATK4 GenomicsDBImport …
lima1 updated
4 years ago
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Hello -
I am using tiledbvcf to create a dataset that I would later like to be able to export as a merged vcf file. I can successfully, load and export data from this dataset. What I would like …
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gatk forum users have started requesting support for MacOS and Linux arm64 architectures - see f[orum post](https://gatk.broadinstitute.org/hc/en-us/community/posts/5462468688539-Is-ARM64-Linux-MacOS-…
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### Description of feature
In order to deal with continuously growing number of gvcf files from haplotypecaller, it would be helpful to start the pipeline from the --joint_germline step. This would e…
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To accurately represent spanning deletion alleles for deletions that span shard boundaries, the best solution is to have separate intervals for GenotypeGVCFs -- one set to query GenomicsDB and one set…
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### bug reports
hi guys :
Hi all, when I run gatk (version: 4.5.0.0) CombineGVCFs to combine 240 8 ploidy samples gvcf, it reports the error as below
![image](https://github.com/broadinst…