René's URL Explorer Experiment


Title: GitHub - BgeeDB/BgeeCall: Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation

Open Graph Title: GitHub - BgeeDB/BgeeCall: Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation

X Title: GitHub - BgeeDB/BgeeCall: Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation

Description: Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation - BgeeDB/BgeeCall

Open Graph Description: Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation - BgeeDB/BgeeCall

X Description: Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation - BgeeDB/BgeeCall

Opengraph URL: https://github.com/BgeeDB/BgeeCall

X: @github

direct link

Domain: patch-diff.githubusercontent.com

route-pattern/:user_id/:repository
route-controllerfiles
route-actiondisambiguate
fetch-noncev2:6c018489-5a1a-0d05-5863-ed203d81bf33
current-catalog-service-hashf3abb0cc802f3d7b95fc8762b94bdcb13bf39634c40c357301c4aa1d67a256fb
request-id9F32:F8DAD:EA882E:13C6A85:698F7C0C
html-safe-noncedc35b1a13e7b28ed68c31ab5211caebb53b55c6ec1ba28f3a417329279dee5cd
visitor-payloadeyJyZWZlcnJlciI6IiIsInJlcXVlc3RfaWQiOiI5RjMyOkY4REFEOkVBODgyRToxM0M2QTg1OjY5OEY3QzBDIiwidmlzaXRvcl9pZCI6IjMxNTA2NDUyMjgyMjM4MjI4NjAiLCJyZWdpb25fZWRnZSI6ImlhZCIsInJlZ2lvbl9yZW5kZXIiOiJpYWQifQ==
visitor-hmac0530266e4f336d08a61b402a381096d3eccd937aa31400314bc83c5357c809bd
hovercard-subject-tagrepository:169433647
github-keyboard-shortcutsrepository,copilot
google-site-verificationApib7-x98H0j5cPqHWwSMm6dNU4GmODRoqxLiDzdx9I
octolytics-urlhttps://collector.github.com/github/collect
analytics-location//
fb:app_id1401488693436528
apple-itunes-appapp-id=1477376905, app-argument=https://github.com/BgeeDB/BgeeCall
twitter:imagehttps://opengraph.githubassets.com/b7b875e029028760b05058379f470675686200e21f07a7f1e3bf0c9eb33aa747/BgeeDB/BgeeCall
twitter:cardsummary_large_image
og:imagehttps://opengraph.githubassets.com/b7b875e029028760b05058379f470675686200e21f07a7f1e3bf0c9eb33aa747/BgeeDB/BgeeCall
og:image:altSource code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation - BgeeDB/BgeeCall
og:image:width1200
og:image:height600
og:site_nameGitHub
og:typeobject
hostnamegithub.com
expected-hostnamegithub.com
None4763146d672e989a41c6c0bd715790c0c59341d9f855508c8a3196e1e480b8f7
turbo-cache-controlno-preview
go-importgithub.com/BgeeDB/BgeeCall git https://github.com/BgeeDB/BgeeCall.git
octolytics-dimension-user_id9800628
octolytics-dimension-user_loginBgeeDB
octolytics-dimension-repository_id169433647
octolytics-dimension-repository_nwoBgeeDB/BgeeCall
octolytics-dimension-repository_publictrue
octolytics-dimension-repository_is_forkfalse
octolytics-dimension-repository_network_root_id169433647
octolytics-dimension-repository_network_root_nwoBgeeDB/BgeeCall
turbo-body-classeslogged-out env-production page-responsive
disable-turbofalse
browser-stats-urlhttps://api.github.com/_private/browser/stats
browser-errors-urlhttps://api.github.com/_private/browser/errors
release8b442a4e0d8e68ffb351da689499018fde153e49
ui-targetfull
theme-color#1e2327
color-schemelight dark

Links:

Skip to contenthttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#start-of-content
https://patch-diff.githubusercontent.com/
Sign in https://patch-diff.githubusercontent.com/login?return_to=https%3A%2F%2Fgithub.com%2FBgeeDB%2FBgeeCall
GitHub CopilotWrite better code with AIhttps://github.com/features/copilot
GitHub SparkBuild and deploy intelligent appshttps://github.com/features/spark
GitHub ModelsManage and compare promptshttps://github.com/features/models
MCP RegistryNewIntegrate external toolshttps://github.com/mcp
ActionsAutomate any workflowhttps://github.com/features/actions
CodespacesInstant dev environmentshttps://github.com/features/codespaces
IssuesPlan and track workhttps://github.com/features/issues
Code ReviewManage code changeshttps://github.com/features/code-review
GitHub Advanced SecurityFind and fix vulnerabilitieshttps://github.com/security/advanced-security
Code securitySecure your code as you buildhttps://github.com/security/advanced-security/code-security
Secret protectionStop leaks before they starthttps://github.com/security/advanced-security/secret-protection
Why GitHubhttps://github.com/why-github
Documentationhttps://docs.github.com
Bloghttps://github.blog
Changeloghttps://github.blog/changelog
Marketplacehttps://github.com/marketplace
View all featureshttps://github.com/features
Enterpriseshttps://github.com/enterprise
Small and medium teamshttps://github.com/team
Startupshttps://github.com/enterprise/startups
Nonprofitshttps://github.com/solutions/industry/nonprofits
App Modernizationhttps://github.com/solutions/use-case/app-modernization
DevSecOpshttps://github.com/solutions/use-case/devsecops
DevOpshttps://github.com/solutions/use-case/devops
CI/CDhttps://github.com/solutions/use-case/ci-cd
View all use caseshttps://github.com/solutions/use-case
Healthcarehttps://github.com/solutions/industry/healthcare
Financial serviceshttps://github.com/solutions/industry/financial-services
Manufacturinghttps://github.com/solutions/industry/manufacturing
Governmenthttps://github.com/solutions/industry/government
View all industrieshttps://github.com/solutions/industry
View all solutionshttps://github.com/solutions
AIhttps://github.com/resources/articles?topic=ai
Software Developmenthttps://github.com/resources/articles?topic=software-development
DevOpshttps://github.com/resources/articles?topic=devops
Securityhttps://github.com/resources/articles?topic=security
View all topicshttps://github.com/resources/articles
Customer storieshttps://github.com/customer-stories
Events & webinarshttps://github.com/resources/events
Ebooks & reportshttps://github.com/resources/whitepapers
Business insightshttps://github.com/solutions/executive-insights
GitHub Skillshttps://skills.github.com
Documentationhttps://docs.github.com
Customer supporthttps://support.github.com
Community forumhttps://github.com/orgs/community/discussions
Trust centerhttps://github.com/trust-center
Partnershttps://github.com/partners
GitHub SponsorsFund open source developershttps://github.com/sponsors
Security Labhttps://securitylab.github.com
Maintainer Communityhttps://maintainers.github.com
Acceleratorhttps://github.com/accelerator
Archive Programhttps://archiveprogram.github.com
Topicshttps://github.com/topics
Trendinghttps://github.com/trending
Collectionshttps://github.com/collections
Enterprise platformAI-powered developer platformhttps://github.com/enterprise
GitHub Advanced SecurityEnterprise-grade security featureshttps://github.com/security/advanced-security
Copilot for BusinessEnterprise-grade AI featureshttps://github.com/features/copilot/copilot-business
Premium SupportEnterprise-grade 24/7 supporthttps://github.com/premium-support
Pricinghttps://github.com/pricing
Search syntax tipshttps://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
documentationhttps://docs.github.com/search-github/github-code-search/understanding-github-code-search-syntax
Sign in https://patch-diff.githubusercontent.com/login?return_to=https%3A%2F%2Fgithub.com%2FBgeeDB%2FBgeeCall
Sign up https://patch-diff.githubusercontent.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=BgeeDB%2FBgeeCall
Reloadhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Reloadhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Reloadhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
BgeeDB https://patch-diff.githubusercontent.com/BgeeDB
BgeeCallhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Notifications https://patch-diff.githubusercontent.com/login?return_to=%2FBgeeDB%2FBgeeCall
Fork 1 https://patch-diff.githubusercontent.com/login?return_to=%2FBgeeDB%2FBgeeCall
Star 4 https://patch-diff.githubusercontent.com/login?return_to=%2FBgeeDB%2FBgeeCall
bioconductor.org/packages/BgeeCall/https://bioconductor.org/packages/BgeeCall/
GPL-3.0 license https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/LICENSE
4 stars https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/stargazers
1 fork https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/forks
Branches https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/branches
Tags https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tags
Activity https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/activity
Star https://patch-diff.githubusercontent.com/login?return_to=%2FBgeeDB%2FBgeeCall
Notifications https://patch-diff.githubusercontent.com/login?return_to=%2FBgeeDB%2FBgeeCall
Code https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Issues 1 https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/issues
Pull requests 0 https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/pulls
Actions https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/actions
Projects 0 https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/projects
Security 0 https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/security
Insights https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/pulse
Code https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Issues https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/issues
Pull requests https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/pulls
Actions https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/actions
Projects https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/projects
Security https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/security
Insights https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/pulse
Brancheshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/branches
Tagshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tags
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/branches
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tags
464 Commitshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/commits/master/
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/commits/master/
Rhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/R
Rhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/R
insthttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/inst
insthttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/inst
manhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/man
manhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/man
testshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/tests
testshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/tests
vignetteshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/vignettes
vignetteshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tree/master/vignettes
.gitignorehttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/.gitignore
.gitignorehttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/.gitignore
DESCRIPTIONhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/DESCRIPTION
DESCRIPTIONhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/DESCRIPTION
LICENSEhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/LICENSE
LICENSEhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/LICENSE
NAMESPACEhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/NAMESPACE
NAMESPACEhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/NAMESPACE
README.mdhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/README.md
README.mdhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/blob/master/README.md
READMEhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
GPL-3.0 licensehttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#bgeecall-a-r-package-for-automatic-rna-seq-presentabsent-gene-expression-calls-generation
https://www.bioconductor.org/packages/devel/bioc/html/BgeeCall.html#since
https://bsky.app/profile/bgee.org
https://genomic.social/%40bgeedb
Bgeehttps://bgee.org/
GitHub issues managerhttps://github.com/BgeeDB/BgeeCall/issues
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#how-presentabsent-calls-are-generated
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#bgee-database
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#reference-intergenic-regions
Bgee RNA-Seq pipelinehttps://github.com/BgeeDB/bgee_pipeline/tree/master/pipeline/RNA_Seq
kallistohttps://github.com/pachterlab/kallisto
Bgee RNA-Seq pipelinehttps://github.com/BgeeDB/bgee_pipeline/tree/master/pipeline/RNA_Seq
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#threshold-of-presentabsent
Bgeehttps://bgee.org/
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#installation
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#how-to-use-the-bgeecall-package
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#load-the-package
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#quick-start
ShortReadhttp://bioconductor.org/packages/release/bioc/html/ShortRead.html
transcript levelhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#transcript_level
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#generate-presentabsent-calls-for-more-than-one-rna-seq-library
Generate calls for a subset of RNA-Seq runshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#run_ids
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#parallized-generation-of-presentabsent-calls-on-a-cluster
Modify slurm optionshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#slurm_options
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#reference-intergenic-sequences
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#releases-of-reference-intergenic-sequences
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#core-reference-intergenic-from-bgee
Bgee pipelinehttps://github.com/BgeeDB/bgee_pipeline/tree/master/pipeline/RNA_Seq
herehttps://bgee.org/ftp/intergenic/current/species_info.tsv
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#community-reference-intergenic
this tutorialhttps://github.com/BgeeDB/reference_intergenic_standalone#protocol-to-generate-reference-intergenic-sequences
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#your-own-reference-intergenic
this tuorialhttps://github.com/BgeeDB/reference_intergenic_standalone#protocol-to-generate-reference-intergenic-sequences
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#generate-presentabsent-calls-at-transcript-level-beta-version
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#tune-how-to-use-kallisto
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#download-or-reuse-your-own-kallisto
http://pachterlab.github.io/kallisto/downloadhttp://pachterlab.github.io/kallisto/download
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#edit-kallisto-quant-attributes
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#choose-between-two-kmer-size
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#generate-calls-for-a-subset-of-rna-seq-runs
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#modify-presentabsent-threshold
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#generate-calls-for-same-library-using-different-transcriptome-or-annotation-versions
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#change-directory-where-calls-are-saved
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#modify-slurm-options
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#number-of-jobs
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#do-not-submit-the-jobs
https://cran.r-project.org/web/packages/rslurm/vignettes/rslurm.html)[rslurmhttps://cran.r-project.org/web/packages/rslurm/vignettes/rslurm.html)%5Brslurm
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#modify-slurm-options-1
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#add-modules-to-your-environment
https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#modify-bgeecall-objects
bioconductor.org/packages/BgeeCall/https://bioconductor.org/packages/BgeeCall/
rna-seq https://patch-diff.githubusercontent.com/topics/rna-seq
biology https://patch-diff.githubusercontent.com/topics/biology
gene-expression https://patch-diff.githubusercontent.com/topics/gene-expression
scrna-seq https://patch-diff.githubusercontent.com/topics/scrna-seq
rna-seq-libraries https://patch-diff.githubusercontent.com/topics/rna-seq-libraries
intergenic-regions https://patch-diff.githubusercontent.com/topics/intergenic-regions
gene-level https://patch-diff.githubusercontent.com/topics/gene-level
present-absent-calls https://patch-diff.githubusercontent.com/topics/present-absent-calls
Readme https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#readme-ov-file
GPL-3.0 license https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall#GPL-3.0-1-ov-file
Please reload this pagehttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Activityhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/activity
Custom propertieshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/custom-properties
4 starshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/stargazers
3 watchinghttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/watchers
1 forkhttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/forks
Report repository https://patch-diff.githubusercontent.com/contact/report-content?content_url=https%3A%2F%2Fgithub.com%2FBgeeDB%2FBgeeCall&report=BgeeDB+%28user%29
Releaseshttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/releases
1 tags https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/tags
Packages 0https://patch-diff.githubusercontent.com/orgs/BgeeDB/packages?repo_name=BgeeCall
Please reload this pagehttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
Contributors 7https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/graphs/contributors
Please reload this pagehttps://patch-diff.githubusercontent.com/BgeeDB/BgeeCall
R 100.0% https://patch-diff.githubusercontent.com/BgeeDB/BgeeCall/search?l=r
https://github.com
Termshttps://docs.github.com/site-policy/github-terms/github-terms-of-service
Privacyhttps://docs.github.com/site-policy/privacy-policies/github-privacy-statement
Securityhttps://github.com/security
Statushttps://www.githubstatus.com/
Communityhttps://github.community/
Docshttps://docs.github.com/
Contacthttps://support.github.com?tags=dotcom-footer

Viewport: width=device-width

URLs of crawlers that visited me.