René's URL Explorer Experiment


Title: GitHub - pachterlab/kb_python: A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing

Open Graph Title: GitHub - pachterlab/kb_python: A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing

X Title: GitHub - pachterlab/kb_python: A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing

Description: A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing - pachterlab/kb_python

Open Graph Description: A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing - pachterlab/kb_python

X Description: A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing - pachterlab/kb_python

Opengraph URL: https://github.com/pachterlab/kb_python

X: @github

direct link

Domain: patch-diff.githubusercontent.com

route-pattern/:user_id/:repository
route-controllerfiles
route-actiondisambiguate
fetch-noncev2:b139f305-ac4d-2d33-e41a-f2b9a22da1c4
current-catalog-service-hashf3abb0cc802f3d7b95fc8762b94bdcb13bf39634c40c357301c4aa1d67a256fb
request-idE488:37CF59:544653A:7038D59:698C865C
html-safe-nonce684ab0f07f00e33d2a794cebb3417e82cb046aad99d4415199da1dbd5fbf3705
visitor-payloadeyJyZWZlcnJlciI6IiIsInJlcXVlc3RfaWQiOiJFNDg4OjM3Q0Y1OTo1NDQ2NTNBOjcwMzhENTk6Njk4Qzg2NUMiLCJ2aXNpdG9yX2lkIjoiODIyMzQ3MjIzMDEzNjA1NTM4OCIsInJlZ2lvbl9lZGdlIjoiaWFkIiwicmVnaW9uX3JlbmRlciI6ImlhZCJ9
visitor-hmaced08311771afe95e3eafae8541c08f7d8c1598f8f10421fa7e6815db709764cb
hovercard-subject-tagrepository:215165758
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/pachterlab/kb_python
twitter:imagehttps://opengraph.githubassets.com/afa6c7bd34e67d36a74d4fcbd4b2d574ed1aa1afe32588b13a661fa19f0b664d/pachterlab/kb_python
twitter:cardsummary_large_image
og:imagehttps://opengraph.githubassets.com/afa6c7bd34e67d36a74d4fcbd4b2d574ed1aa1afe32588b13a661fa19f0b664d/pachterlab/kb_python
og:image:altA wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing - pachterlab/kb_python
og:image:width1200
og:image:height600
og:site_nameGitHub
og:typeobject
hostnamegithub.com
expected-hostnamegithub.com
None640eeb7b6ff4d8d106235d228c0c286e82592d4d2403227b5b2b4fc5832297a4
turbo-cache-controlno-preview
go-importgithub.com/pachterlab/kb_python git https://github.com/pachterlab/kb_python.git
octolytics-dimension-user_id10359946
octolytics-dimension-user_loginpachterlab
octolytics-dimension-repository_id215165758
octolytics-dimension-repository_nwopachterlab/kb_python
octolytics-dimension-repository_publictrue
octolytics-dimension-repository_is_forkfalse
octolytics-dimension-repository_network_root_id215165758
octolytics-dimension-repository_network_root_nwopachterlab/kb_python
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
release3d444f0a47beeeac94cddbb51c91ab408befe8d4
ui-targetfull
theme-color#1e2327
color-schemelight dark

Links:

Skip to contenthttps://patch-diff.githubusercontent.com/pachterlab/kb_python#start-of-content
https://patch-diff.githubusercontent.com/
Sign in https://patch-diff.githubusercontent.com/login?return_to=https%3A%2F%2Fgithub.com%2Fpachterlab%2Fkb_python
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%2Fpachterlab%2Fkb_python
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=pachterlab%2Fkb_python
Reloadhttps://patch-diff.githubusercontent.com/pachterlab/kb_python
Reloadhttps://patch-diff.githubusercontent.com/pachterlab/kb_python
Reloadhttps://patch-diff.githubusercontent.com/pachterlab/kb_python
pachterlab https://patch-diff.githubusercontent.com/pachterlab
kb_pythonhttps://patch-diff.githubusercontent.com/pachterlab/kb_python
Notifications https://patch-diff.githubusercontent.com/login?return_to=%2Fpachterlab%2Fkb_python
Fork 28 https://patch-diff.githubusercontent.com/login?return_to=%2Fpachterlab%2Fkb_python
Star 181 https://patch-diff.githubusercontent.com/login?return_to=%2Fpachterlab%2Fkb_python
www.kallistobus.tools/https://www.kallistobus.tools/
BSD-2-Clause license https://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/LICENSE
181 stars https://patch-diff.githubusercontent.com/pachterlab/kb_python/stargazers
28 forks https://patch-diff.githubusercontent.com/pachterlab/kb_python/forks
Branches https://patch-diff.githubusercontent.com/pachterlab/kb_python/branches
Tags https://patch-diff.githubusercontent.com/pachterlab/kb_python/tags
Activity https://patch-diff.githubusercontent.com/pachterlab/kb_python/activity
Star https://patch-diff.githubusercontent.com/login?return_to=%2Fpachterlab%2Fkb_python
Notifications https://patch-diff.githubusercontent.com/login?return_to=%2Fpachterlab%2Fkb_python
Code https://patch-diff.githubusercontent.com/pachterlab/kb_python
Issues 1 https://patch-diff.githubusercontent.com/pachterlab/kb_python/issues
Pull requests 3 https://patch-diff.githubusercontent.com/pachterlab/kb_python/pulls
Actions https://patch-diff.githubusercontent.com/pachterlab/kb_python/actions
Security 0 https://patch-diff.githubusercontent.com/pachterlab/kb_python/security
Insights https://patch-diff.githubusercontent.com/pachterlab/kb_python/pulse
Code https://patch-diff.githubusercontent.com/pachterlab/kb_python
Issues https://patch-diff.githubusercontent.com/pachterlab/kb_python/issues
Pull requests https://patch-diff.githubusercontent.com/pachterlab/kb_python/pulls
Actions https://patch-diff.githubusercontent.com/pachterlab/kb_python/actions
Security https://patch-diff.githubusercontent.com/pachterlab/kb_python/security
Insights https://patch-diff.githubusercontent.com/pachterlab/kb_python/pulse
Brancheshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/branches
Tagshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tags
https://patch-diff.githubusercontent.com/pachterlab/kb_python/branches
https://patch-diff.githubusercontent.com/pachterlab/kb_python/tags
629 Commitshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/commits/master/
https://patch-diff.githubusercontent.com/pachterlab/kb_python/commits/master/
.githubhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/.github
.githubhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/.github
docshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/docs
docshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/docs
kb_pythonhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/kb_python
kb_pythonhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/kb_python
testshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/tests
testshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/tree/master/tests
.gitattributeshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/.gitattributes
.gitattributeshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/.gitattributes
.gitignorehttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/.gitignore
.gitignorehttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/.gitignore
.pre-commit-config.yamlhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/.pre-commit-config.yaml
.pre-commit-config.yamlhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/.pre-commit-config.yaml
LICENSEhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/LICENSE
LICENSEhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/LICENSE
MANIFEST.inhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/MANIFEST.in
MANIFEST.inhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/MANIFEST.in
Makefilehttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/Makefile
Makefilehttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/Makefile
README.mdhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/README.md
README.mdhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/README.md
codecov.ymlhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/codecov.yml
codecov.ymlhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/codecov.yml
dev-requirements.txthttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/dev-requirements.txt
dev-requirements.txthttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/dev-requirements.txt
readthedocs.ymlhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/readthedocs.yml
readthedocs.ymlhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/readthedocs.yml
requirements.txthttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/requirements.txt
requirements.txthttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/requirements.txt
setup.cfghttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/setup.cfg
setup.cfghttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/setup.cfg
setup.pyhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/setup.py
setup.pyhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/setup.py
READMEhttps://patch-diff.githubusercontent.com/pachterlab/kb_python
BSD-2-Clause licensehttps://patch-diff.githubusercontent.com/pachterlab/kb_python
https://patch-diff.githubusercontent.com/pachterlab/kb_python#kb-python
https://camo.githubusercontent.com/b02604e8386617944d17f433f58cdc4ebebe7f63274afb52a04af03aff6bfd5f/68747470733a2f2f696d672e736869656c64732e696f2f62616467652f56657273696f6e2d302e33302e302d696e666f726d6174696f6e616c
https://pypi.org/project/kb-python/0.30.0/
https://camo.githubusercontent.com/5d62a01ab49bd7dac2b883ba2d2f8bd6278a86f8c6c4cfb576747231977fc5c2/68747470733a2f2f696d672e736869656c64732e696f2f707970692f707976657273696f6e732f6b625f707974686f6e
https://github.com/pachterlab/kb_python/workflows/CI/badge.svg
https://codecov.io/gh/pachterlab/kb_python
https://pypi.org/project/kb-python/
https://kb-python.readthedocs.io/en/latest/?badge=latest
https://patch-diff.githubusercontent.com/pachterlab/kb_python/blob/master/LICENSE
kallisto | bustoolshttps://www.kallistobus.tools
Kyung Hoi (Joseph) Minhttps://twitter.com/lioscro
A. Sina Booeshaghihttps://twitter.com/sinabooeshaghi
Lior Pachterhttps://twitter.com/lpachter
cite*https://patch-diff.githubusercontent.com/pachterlab/kb_python#cite
https://patch-diff.githubusercontent.com/pachterlab/kb_python#installation
https://patch-diff.githubusercontent.com/pachterlab/kb_python#usage
https://patch-diff.githubusercontent.com/pachterlab/kb_python#kb-ref-generate-a-pseudoalignment-index
ensemblhttps://uswest.ensembl.org/Danio_rerio/Info/Index
herehttp://ftp.ensembl.org/pub/release-107/fasta/danio_rerio/dna/Danio_rerio.GRCz11.dna.primary_assembly.fa.gz
ensemblhttps://uswest.ensembl.org/Danio_rerio/Info/Index
herehttp://ftp.ensembl.org/pub/release-107/gtf/danio_rerio/Danio_rerio.GRCz11.107.gtf.gz
ggethttps://github.com/pachterlab/gget
https://github.com/pachterlab/kallisto-transcriptome-indiceshttps://github.com/pachterlab/kallisto-transcriptome-indices
https://patch-diff.githubusercontent.com/pachterlab/kb_python#examples
https://patch-diff.githubusercontent.com/pachterlab/kb_python#kb-count-pseudoalign-and-count-reads
kallistohttps://github.com/pachterlab/kallisto
bustoolshttps://github.com/BUStools/bustools/
https://patch-diff.githubusercontent.com/pachterlab/kb_python#examples-1
https://patch-diff.githubusercontent.com/pachterlab/kb_python#kb-info-display-package-and-citation-information
https://patch-diff.githubusercontent.com/pachterlab/kb_python#kb-compile-compile-kallisto-and-bustools-binaries-from-source
https://patch-diff.githubusercontent.com/pachterlab/kb_python#use-cases
@sbooeshaghihttps://github.com/sbooeshaghi/
https://patch-diff.githubusercontent.com/pachterlab/kb_python#tutorials
https://www.kallistobus.tools/https://www.kallistobus.tools/
https://patch-diff.githubusercontent.com/pachterlab/kb_python#documentation
Read the Docshttps://kb-python.readthedocs.io/en/latest/
https://patch-diff.githubusercontent.com/pachterlab/kb_python#contributing
https://patch-diff.githubusercontent.com/pachterlab/kb_python#cite
http://linnarssonlab.org/loompy/kallisto/index.htmlhttp://linnarssonlab.org/loompy/kallisto/index.html
www.kallistobus.tools/https://www.kallistobus.tools/
scrna-seq https://patch-diff.githubusercontent.com/topics/scrna-seq
kallisto https://patch-diff.githubusercontent.com/topics/kallisto
single-cell-rna-seq https://patch-diff.githubusercontent.com/topics/single-cell-rna-seq
rna-velocity-estimation https://patch-diff.githubusercontent.com/topics/rna-velocity-estimation
bustools https://patch-diff.githubusercontent.com/topics/bustools
kb-python https://patch-diff.githubusercontent.com/topics/kb-python
Readme https://patch-diff.githubusercontent.com/pachterlab/kb_python#readme-ov-file
BSD-2-Clause license https://patch-diff.githubusercontent.com/pachterlab/kb_python#BSD-2-Clause-1-ov-file
Please reload this pagehttps://patch-diff.githubusercontent.com/pachterlab/kb_python
Activityhttps://patch-diff.githubusercontent.com/pachterlab/kb_python/activity
Custom propertieshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/custom-properties
181 starshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/stargazers
10 watchinghttps://patch-diff.githubusercontent.com/pachterlab/kb_python/watchers
28 forkshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/forks
Report repository https://patch-diff.githubusercontent.com/contact/report-content?content_url=https%3A%2F%2Fgithub.com%2Fpachterlab%2Fkb_python&report=pachterlab+%28user%29
Releases 36https://patch-diff.githubusercontent.com/pachterlab/kb_python/releases
v0.30.0 Latest Oct 27, 2025 https://patch-diff.githubusercontent.com/pachterlab/kb_python/releases/tag/v0.30.0
+ 35 releaseshttps://patch-diff.githubusercontent.com/pachterlab/kb_python/releases
Packages 0https://patch-diff.githubusercontent.com/orgs/pachterlab/packages?repo_name=kb_python
Please reload this pagehttps://patch-diff.githubusercontent.com/pachterlab/kb_python
Contributors 15https://patch-diff.githubusercontent.com/pachterlab/kb_python/graphs/contributors
Please reload this pagehttps://patch-diff.githubusercontent.com/pachterlab/kb_python
Python 98.6% https://patch-diff.githubusercontent.com/pachterlab/kb_python/search?l=python
Jupyter Notebook 1.2% https://patch-diff.githubusercontent.com/pachterlab/kb_python/search?l=jupyter-notebook
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.