Comments (3)
the requirement is to port the FilterLiftedVariants tools and the tests from GATK3 (and add more tests because the current ones are very incomplete)
from gatk.
FYI Tim Fennell recently implemented a similar tool in Picard. Only one needs to be ported - I don't care much either way.
from gatk.
not for 4.0
from gatk.
Related Issues (20)
- GenotypeGVCFs Poor Performace on Whole Genome Sequencing HOT 5
- Update hmmUrl in install_R_packages.R
- HaplotypeCaller phased missing genotype to .|.
- Funcotator throwing error more than one config file
- GetPileupSummaries Permanently Stalled but High CPU Usage HOT 5
- VariantRecalibrator R-script fails if `scales` v1.3.0 is installed HOT 1
- FileDataSource is in SAMRecord HOT 1
- ArrayIndexOutOfBoundsException reported in TandemRepeat.getNumTandemRepeatUnits()
- does GATK offers to match alleles in two vcf files?
- Fix broken links in HaplotypeCaller documentation
- GenomicsDB malloc unaligned tcache chunk error HOT 8
- Docker image (broadinstitute/gatk) has too many unnecessary layers potentially causing throttling issues HOT 8
- Element sequencing platform - valid value for read groups (PL)?
- Mutect2 is incompatible with Mutect2 VCFs as feature files
- SplitNCigarReads.java - retain original read name somewhere for split parts of reads so we know where it derived from. HOT 10
- GenotypeGVCFs - A USER ERROR has occurred: Couldn't create GenomicsDBFeatureReader HOT 1
- Bug Funcotator: wrong canonical HOT 1
- SelectVariants (Documentation): Purpose of reference sequence
- Multiple Tools (Documentation): Format of `--arguments_file`
- Memory issues when running BaseRecalibrator
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from gatk.