René's URL Explorer Experiment

Title: GitHub - invitae/VarDictJava: VarDict Java port · GitHub

Open Graph Title: GitHub - invitae/VarDictJava: VarDict Java port

X Title: GitHub - invitae/VarDictJava: VarDict Java port

Description: VarDict Java port. Contribute to invitae/VarDictJava development by creating an account on GitHub.

Open Graph Description: VarDict Java port. Contribute to invitae/VarDictJava development by creating an account on GitHub.

X Description: VarDict Java port. Contribute to invitae/VarDictJava development by creating an account on GitHub.

Opengraph URL: https://github.com/invitae/VarDictJava

X: @github

direct link

Domain: github.com

route-pattern	/:user_id/:repository
route-controller	files
route-action	disambiguate
fetch-nonce	v2:32cb51f8-3624-9717-a0e2-3e5f8bf3fb12
current-catalog-service-hash	f3abb0cc802f3d7b95fc8762b94bdcb13bf39634c40c357301c4aa1d67a256fb
request-id	AE22:2B266B:191077:21F497:6A6146F6
html-safe-nonce	fcf778883bf7e5a592344a6f55fa060733fa502e24c247d11f340fb70aae2929
visitor-payload	eyJyZWZlcnJlciI6IiIsInJlcXVlc3RfaWQiOiJBRTIyOjJCMjY2QjoxOTEwNzc6MjFGNDk3OjZBNjE0NkY2IiwidmlzaXRvcl9pZCI6IjEyNTAxMTAxMTgwMTQ1NjgxODIiLCJyZWdpb25fZWRnZSI6ImlhZCIsInJlZ2lvbl9yZW5kZXIiOiJpYWQifQ==
visitor-hmac	5291abf00f3696d2ed13ec47173c34bc397b7601f609b38ee3ca8fdd2bf9eda4
hovercard-subject-tag	repository:898098962
github-keyboard-shortcuts	repository,copilot
google-site-verification	Apib7-x98H0j5cPqHWwSMm6dNU4GmODRoqxLiDzdx9I
octolytics-url	https://collector.github.com/github/collect
analytics-location	//
fb:app_id	1401488693436528
apple-itunes-app	app-id=1477376905, app-argument=https://github.com/invitae/VarDictJava
twitter:image	https://opengraph.githubassets.com/42df6f157f7d696705757dcff7d616494edfeab044bd13691ce1eca9747efe52/invitae/VarDictJava
twitter:card	summary_large_image
og:image	https://opengraph.githubassets.com/42df6f157f7d696705757dcff7d616494edfeab044bd13691ce1eca9747efe52/invitae/VarDictJava
og:image:alt	VarDict Java port. Contribute to invitae/VarDictJava development by creating an account on GitHub.
og:image:width	1200
og:image:height	600
og:site_name	GitHub
og:type	object
hostname	github.com
expected-hostname	github.com
None	4876c15b81beff1a5306612a3386748550c731559f1dbbe4cf7146fda63fc0e0
turbo-cache-control	no-cache
go-import	github.com/invitae/VarDictJava git https://github.com/invitae/VarDictJava.git
octolytics-dimension-user_id	6261481
octolytics-dimension-user_login	invitae
octolytics-dimension-repository_id	898098962
octolytics-dimension-repository_nwo	invitae/VarDictJava
octolytics-dimension-repository_public	true
octolytics-dimension-repository_is_fork	true
octolytics-dimension-repository_parent_id	26852732
octolytics-dimension-repository_parent_nwo	AstraZeneca-NGS/VarDictJava
octolytics-dimension-repository_network_root_id	26852732
octolytics-dimension-repository_network_root_nwo	AstraZeneca-NGS/VarDictJava
turbo-body-classes	logged-out env-production page-responsive
disable-turbo	false
browser-stats-url	https://api.github.com/_private/browser/stats
browser-errors-url	https://api.github.com/_private/browser/errors
release	3e1bd3b6ebab0d27ffbef3a6bbb1043bc5f098ae
ui-target	full
theme-color	#1e2327
color-scheme	light dark

Links:

Skip to content	https://github.com/invitae/VarDictJava#start-of-content
	https://github.com/
Sign in	https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2Finvitae%2FVarDictJava
GitHub CopilotWrite better code with AI	https://github.com/features/copilot
GitHub Copilot appDirect agents from issue to merge	https://github.com/features/ai/github-app
MCP RegistryNewIntegrate external tools	https://github.com/mcp
ActionsAutomate any workflow	https://github.com/features/actions
CodespacesInstant dev environments	https://github.com/features/codespaces
IssuesPlan and track work	https://github.com/features/issues
Code ReviewManage code changes	https://github.com/features/code-review
Code QualityEnforce quality at merge	https://github.com/features/code-quality
GitHub Advanced SecurityFind and fix vulnerabilities	https://github.com/security/advanced-security
Code securitySecure your code as you build	https://github.com/security/advanced-security/code-security
Secret protectionStop leaks before they start	https://github.com/security/advanced-security/secret-protection
Why GitHub	https://github.com/why-github
Documentation	https://docs.github.com
Blog	https://github.blog
Changelog	https://github.blog/changelog
Marketplace	https://github.com/marketplace
View all features	https://github.com/features
Enterprises	https://github.com/enterprise
Small and medium teams	https://github.com/team
Startups	https://github.com/enterprise/startups
Nonprofits	https://github.com/solutions/industry/nonprofits
App Modernization	https://github.com/solutions/use-case/app-modernization
DevSecOps	https://github.com/solutions/use-case/devsecops
DevOps	https://github.com/solutions/use-case/devops
CI/CD	https://github.com/solutions/use-case/ci-cd
View all use cases	https://github.com/solutions/use-case
Healthcare	https://github.com/solutions/industry/healthcare
Financial services	https://github.com/solutions/industry/financial-services
Manufacturing	https://github.com/solutions/industry/manufacturing
Government	https://github.com/solutions/industry/government
View all industries	https://github.com/solutions/industry
View all solutions	https://github.com/solutions
AI	https://github.com/resources/articles?topic=ai
Software Development	https://github.com/resources/articles?topic=software-development
DevOps	https://github.com/resources/articles?topic=devops
Security	https://github.com/resources/articles?topic=security
View all topics	https://github.com/resources/articles
Customer stories	https://github.com/customer-stories
Events & webinars	https://github.com/resources/events
Ebooks & reports	https://github.com/resources/whitepapers
Business insights	https://github.com/solutions/executive-insights
GitHub Skills	https://skills.github.com
Documentation	https://docs.github.com
Customer support	https://support.github.com
Community forum	https://github.com/orgs/community/discussions
Trust center	https://github.com/trust-center
Partners	https://github.com/partners
View all resources	https://github.com/resources
GitHub SponsorsFund open source developers	https://github.com/open-source/sponsors
Security Lab	https://securitylab.github.com
Maintainer Community	https://maintainers.github.com
Accelerator	https://github.com/open-source/accelerator
GitHub Stars	https://stars.github.com
Archive Program	https://archiveprogram.github.com
Topics	https://github.com/topics
Trending	https://github.com/trending
Collections	https://github.com/collections
Enterprise platformAI-powered developer platform	https://github.com/enterprise
GitHub Advanced SecurityEnterprise-grade security features	https://github.com/security/advanced-security
Copilot for BusinessEnterprise-grade AI features	https://github.com/features/copilot/copilot-business
Premium SupportEnterprise-grade 24/7 support	https://github.com/enterprise/premium-support
Pricing	https://github.com/pricing
Search syntax tips	https://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
documentation	https://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
Sign in	https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2Finvitae%2FVarDictJava
Sign up	https://github.com/signup?ref_cta=Sign+up&ref_loc=header+logged+out&ref_page=%2F%3Cuser-name%3E%2F%3Crepo-name%3E&source=header-repo&source_repo=invitae%2FVarDictJava
Reload	https://github.com/invitae/VarDictJava
Reload	https://github.com/invitae/VarDictJava
Reload	https://github.com/invitae/VarDictJava
Please reload this page	https://github.com/invitae/VarDictJava
invitae	https://github.com/invitae
VarDictJava	https://github.com/invitae/VarDictJava
AstraZeneca-NGS/VarDictJava	https://github.com/AstraZeneca-NGS/VarDictJava
Notifications	https://github.com/login?return_to=%2Finvitae%2FVarDictJava
Fork 0	https://github.com/login?return_to=%2Finvitae%2FVarDictJava
Star 0	https://github.com/login?return_to=%2Finvitae%2FVarDictJava
Code	https://github.com/invitae/VarDictJava
Pull requests 1	https://github.com/invitae/VarDictJava/pulls
Actions	https://github.com/invitae/VarDictJava/actions
Projects	https://github.com/invitae/VarDictJava/projects
Security and quality 0	https://github.com/invitae/VarDictJava/security
Insights	https://github.com/invitae/VarDictJava/pulse
Code	https://github.com/invitae/VarDictJava
Pull requests	https://github.com/invitae/VarDictJava/pulls
Actions	https://github.com/invitae/VarDictJava/actions
Projects	https://github.com/invitae/VarDictJava/projects
Security and quality	https://github.com/invitae/VarDictJava/security
Insights	https://github.com/invitae/VarDictJava/pulse
	https://github.com/invitae/VarDictJava
Branches	https://github.com/invitae/VarDictJava/branches
Tags	https://github.com/invitae/VarDictJava/tags
	https://github.com/invitae/VarDictJava/branches
	https://github.com/invitae/VarDictJava/tags
512 Commits	https://github.com/invitae/VarDictJava/commits/master/
	https://github.com/invitae/VarDictJava/commits/master/
VarDict @ 009e017	https://github.com/AstraZeneca-NGS/VarDict/tree/009e017d90b25e497ddd50645dc4fa27c484a193
VarDict @ 009e017	https://github.com/AstraZeneca-NGS/VarDict/tree/009e017d90b25e497ddd50645dc4fa27c484a193
dist	https://github.com/invitae/VarDictJava/tree/master/dist
dist	https://github.com/invitae/VarDictJava/tree/master/dist
git	https://github.com/invitae/VarDictJava/tree/master/git
git	https://github.com/invitae/VarDictJava/tree/master/git
gradle/wrapper	https://github.com/invitae/VarDictJava/tree/master/gradle/wrapper
gradle/wrapper	https://github.com/invitae/VarDictJava/tree/master/gradle/wrapper
src	https://github.com/invitae/VarDictJava/tree/master/src
src	https://github.com/invitae/VarDictJava/tree/master/src
testdata	https://github.com/invitae/VarDictJava/tree/master/testdata
testdata	https://github.com/invitae/VarDictJava/tree/master/testdata
tests/integration	https://github.com/invitae/VarDictJava/tree/master/tests/integration
tests/integration	https://github.com/invitae/VarDictJava/tree/master/tests/integration
.gitignore	https://github.com/invitae/VarDictJava/blob/master/.gitignore
.gitignore	https://github.com/invitae/VarDictJava/blob/master/.gitignore
.gitmodules	https://github.com/invitae/VarDictJava/blob/master/.gitmodules
.gitmodules	https://github.com/invitae/VarDictJava/blob/master/.gitmodules
.java-version	https://github.com/invitae/VarDictJava/blob/master/.java-version
.java-version	https://github.com/invitae/VarDictJava/blob/master/.java-version
.travis.yml	https://github.com/invitae/VarDictJava/blob/master/.travis.yml
.travis.yml	https://github.com/invitae/VarDictJava/blob/master/.travis.yml
LICENSE	https://github.com/invitae/VarDictJava/blob/master/LICENSE
LICENSE	https://github.com/invitae/VarDictJava/blob/master/LICENSE
Readme.md	https://github.com/invitae/VarDictJava/blob/master/Readme.md
Readme.md	https://github.com/invitae/VarDictJava/blob/master/Readme.md
build.gradle	https://github.com/invitae/VarDictJava/blob/master/build.gradle
build.gradle	https://github.com/invitae/VarDictJava/blob/master/build.gradle
changelog.txt	https://github.com/invitae/VarDictJava/blob/master/changelog.txt
changelog.txt	https://github.com/invitae/VarDictJava/blob/master/changelog.txt
gradlew	https://github.com/invitae/VarDictJava/blob/master/gradlew
gradlew	https://github.com/invitae/VarDictJava/blob/master/gradlew
gradlew.bat	https://github.com/invitae/VarDictJava/blob/master/gradlew.bat
gradlew.bat	https://github.com/invitae/VarDictJava/blob/master/gradlew.bat
settings.gradle	https://github.com/invitae/VarDictJava/blob/master/settings.gradle
settings.gradle	https://github.com/invitae/VarDictJava/blob/master/settings.gradle
README	https://github.com/invitae/VarDictJava
License	https://github.com/invitae/VarDictJava
	https://bioconda.github.io/recipes/vardict-java/README.html
	https://usegalaxy.eu/root?tool_id=vardict_java
	https://github.com/invitae/VarDictJava#vardictjava
	https://github.com/invitae/VarDictJava#introduction
VarDict variant caller	https://github.com/AstraZeneca-NGS/VarDict
https://academic.oup.com/nar/article/44/11/e108/2468301?searchresult=1	https://academic.oup.com/nar/article/44/11/e108/2468301?searchresult=1
	https://github.com/invitae/VarDictJava#requirements
	https://github.com/invitae/VarDictJava#getting-started
	https://github.com/invitae/VarDictJava#getting-source-code
https://github.com/AstraZeneca-NGS/VarDictJava	https://github.com/AstraZeneca-NGS/VarDictJava
	https://github.com/invitae/VarDictJava#compiling
Gradle	http://gradle.org/
	https://github.com/invitae/VarDictJava#distribution-package-structure
	https://github.com/invitae/VarDictJava#third-party-libraries
http://jregex.sourceforge.net	http://jregex.sourceforge.net
http://commons.apache.org/proper/commons-cli	http://commons.apache.org/proper/commons-cli
http://samtools.github.io/htsjdk/	http://samtools.github.io/htsjdk/
	https://github.com/invitae/VarDictJava#single-sample-mode
	https://github.com/invitae/VarDictJava#paired-variant-calling
	https://github.com/invitae/VarDictJava#amplicon-based-calling
	https://github.com/invitae/VarDictJava#running-tests
	https://github.com/invitae/VarDictJava#integration-testing
	https://github.com/invitae/VarDictJava#user-extension-of-testcases
Test cases file format	https://github.com/invitae/VarDictJava/blob/master/Readme.md#CSVhead
thin-FASTA	https://github.com/invitae/VarDictJava/blob/master/Readme.md#thFastahead
	https://github.com/invitae/VarDictJava#test-cases-file-format
	https://github.com/invitae/VarDictJava#test-coverage-report
	https://github.com/invitae/VarDictJava#thin-fasta-format
	https://github.com/invitae/VarDictJava#program-workflow
	https://github.com/invitae/VarDictJava#the-main-workflow
Variant filtering	https://github.com/invitae/VarDictJava/blob/master/Readme.md#VarFiltering
	https://github.com/invitae/VarDictJava#cigar-preprocessing-initial-realignment
	https://github.com/invitae/VarDictJava#variants
	https://github.com/invitae/VarDictJava#variant-description-string
	https://github.com/invitae/VarDictJava#variant-filtering
	https://github.com/invitae/VarDictJava#bias-flag-explanation
	https://github.com/invitae/VarDictJava#variant-classification-in-pairedsomatic-analysis
	https://github.com/invitae/VarDictJava#program-options
	https://github.com/invitae/VarDictJava#vardictjava-options
	https://github.com/invitae/VarDictJava#important-var2vcf_validpl-options
	https://github.com/invitae/VarDictJava#important-var2vcf_pairedpl-options
	https://github.com/invitae/VarDictJava#output-columns
	https://github.com/invitae/VarDictJava#simple-mode
	https://github.com/invitae/VarDictJava#amplicon-mode
	https://github.com/invitae/VarDictJava#somatic-mode
	https://github.com/invitae/VarDictJava#input-files
	https://github.com/invitae/VarDictJava#bed-file--regions
	https://github.com/invitae/VarDictJava#fasta-file---reference-genome
	https://github.com/invitae/VarDictJava#errors-and-warnings
wiki	https://github.com/AstraZeneca-NGS/VarDictJava/wiki
	https://github.com/invitae/VarDictJava#license
MIT license	http://www.opensource.org/licenses/mit-license.html
	https://github.com/invitae/VarDictJava#contributors
VarDict	https://github.com/AstraZeneca-NGS/VarDict
Zhongwu Lai	https://github.com/zhongwulai
Viktor Kirst	https://github.com/vkirst
Zaal Lyanov	https://github.com/jabbarish
Readme	https://github.com/invitae/VarDictJava#readme-ov-file
MIT license	https://github.com/invitae/VarDictJava#MIT-1-ov-file
Please reload this page	https://github.com/invitae/VarDictJava
Activity	https://github.com/invitae/VarDictJava/activity
Custom properties	https://github.com/invitae/VarDictJava/custom-properties
0 forks	https://github.com/invitae/VarDictJava/forks
Report repository	https://github.com/contact/report-content?content_url=https%3A%2F%2Fgithub.com%2Finvitae%2FVarDictJava&report=invitae+%28user%29
Releases	https://github.com/invitae/VarDictJava/releases
2 tags	https://github.com/invitae/VarDictJava/tags
Packages 0	https://github.com/orgs/invitae/packages?repo_name=VarDictJava
Please reload this page	https://github.com/invitae/VarDictJava
Contributors	https://github.com/invitae/VarDictJava/graphs/contributors
Please reload this page	https://github.com/invitae/VarDictJava
	https://github.com
Terms	https://docs.github.com/site-policy/github-terms/github-terms-of-service
Privacy	https://docs.github.com/site-policy/privacy-policies/github-privacy-statement
Security	https://github.com/security
Status	https://www.githubstatus.com/
Community	https://github.community/
Docs	https://docs.github.com/
Contact	https://support.github.com?tags=dotcom-footer

Viewport: width=device-width

URLs of crawlers that visited me.