Open Cravat

@OpenCravat
6 Followers
2 Following
70 Posts

Developed at JohnsHopkins, a platform to annotate and prioritize variants and genes in cancer and germline sequencing projects!

https://opencravat.org

Introducing our latest offering: the Calibrated Classification Package for clinical interpretation of variant effect predictor scores. This innovative package aids users in applying ACMG/AMP variant interpretation guidelines, particularly PP3 (support for pathogenicity) and BP4 (support for benignity), through the use of calibrated computational scores. It provides a standardized, evidence-based approach for integrating predictive tools within OpenCRAVAT, enhancing clinical curation. 🧪 🧬 🖥️
Moez Dawood, an MD/PhD student at Baylor College of Medicine, created the AllofUs 250k annotator for OpenCRAVAT to improve genomic research by integrating diverse data, including ancestry-specific allele frequencies. You can read more about Moez's experience developing the annotator here: https://www.opencravat.org/bringing-genetic-diversity-to-the-forefront-moez-dawood-on-the-allofus-250k-annotator-for-opencravat/
#annotator #opencravat #bioinformatics #opensource #genomics

🧬 Curious about your genome?
Join our free webinar on OpenCRAVAT to explore and annotate your own data!

📅 July 10 – 1 PM EDT
🎙️ Baker & Karchin (JHU)
🔗 https://tinyurl.com/3ur6vv35
#Genomics #Bioinformatics #OpenScience
#annotator #opencravat #bioinformatics #opensource #webinar #genomes 🖥🧪

Discover the power of OpenCRAVAT's cutting-edge annotation features that ensure seamless collaboration among users. Its intuitive design makes it easy for everyone to navigate, while enhancing productivity across the board. Whether you're a beginner or a seasoned pro, OpenCRAVAT opens up a world of possibilities, making your workflow smoother and more efficient.#annotator #opencravat #bioinformatics #opensource #genomics

🧬 We Want Your Feedback! 🧬

Do you use variant annotation software? We’re gathering insights from the genomics community to improve OpenCRAVAT and understand what features matter most to you.

💡 Take this quick survey (it takes less than 2 minutes!): https://shorturl.at/iOvMt

📌 Your input will help shape better tools for researchers, clinicians, and data scientists.
📸 Scan the QR code below to participate!

🔁 Share with colleagues who use variant annotation tools!

#VariantAnnotation

Genomic Variant Annotation Tools Feedback Survey

Thank you for taking a few minutes to share your experience with variant annotation tools! Your feedback will help improve OpenCRAVAT and better meet the needs of researchers and clinicians.

Google Docs

Day 12: “On the twelfth day of OpenCRAVAT, my discovery gave to me…”
🎉 A Genomic Variant Community

Our community is at the heart of everything we do. From researchers to clinicians, your feedback shapes OpenCRAVAT's future. Join us in celebrating our shared journey in variant annotation.
💬 Connect: https://github.com/KarchinLab/open-cravat/discussions
Thank you for being part of our adventure!

#12DaysOfOpenCRAVAT #Community #Genomics 🧬 🖥️

KarchinLab open-cravat · Discussions

Explore the GitHub Discussions forum for KarchinLab open-cravat. Discuss code, ask questions & collaborate with the developer community.

GitHub

⚙️ Day 11: Widgets That Work for You!

Customization is 🔑! OpenCRAVAT’s widgets allow you to visualize variant data in a way that makes sense for your workflow.

🌐 Explore widgets: https://docs.opencravat.org/en/latest/1.-Installation-Instructions.html#installing-viewer-widgets
What’s your favorite widget? Let us know!

#12DaysOfOpenCRAVAT #GenomicTools #DataVisualization🖥️ 🧬

Installation Instructions — open-cravat documentation

🌐 On the 10th day of #OpenCRAVAT, my workflow gave to me…
✨ Powerful API Capabilities!
Integrate OpenCRAVAT into pipelines: submit jobs, check statuses, and fetch custom reports programmatically.
Explore the API docs: https://docs.opencravat.org/en/latest/API.html
#12DaysofOpenCRAVAT #Genomics
API — open-cravat documentation

☁️ Day 9 of #OpenCRAVAT: Run on the Cloud!
No hardware limits, no delays—just efficient genomic analysis anywhere. Learn how to set up OpenCRAVAT on the cloud today.
🔗Cloud Usage: https://docs.opencravat.org/en/latest/Cloud.html
#12DaysofOpenCRAVAT #CloudComputing 🖥️ 🧬 #Genomics #Variants
Cloud Usage — open-cravat documentation

🔎 Day 8 of #OpenCRAVAT: Eight Data Filtering Options!
Refine your results with precision: filter by gene, variant type, pathogenicity score, or population frequency.
Which filter is most useful for your research? Comment below!
🔗Filtering Tutorial: https://docs.opencravat.org/en/latest/Filter-Tutorial.html
#12DaysofOpenCRAVAT #VariantAnalysis 🧬 🖥️
Filter tutorial — open-cravat documentation