Comments (3)
Right, so this happens if for some reason TRGT does not set MC at all, only to a .
. I'll make a simple workaround, but for the bigger picture, could you provide some info as to under what conditions this is happening? I have not yet seen it in an actual sample run? MC typically appears set to the reference repeat len if no deviating allele was found? Is it a "no call" when no allele had good enough quality? If so, we can just ignore it.
If its actual reference calls that happen for other reasons, we should perhaps parse the reference allele size from the repeat definitions and set it on the output. Or better yet, ask Egor and co to do so. 😊
from stranger.
Thank you. This example happens when there are no reads in the region.
from stranger.
Gotcha. Ok, that is not going to happen very often, and I guess 0
is a good a size guesstimate as any if there are no reads at all mapping. 😸
from stranger.
Related Issues (20)
- RFC1 ReferenceRegion for GRCh37 HOT 1
- different attributes in GRCh37 vs. GRCh38 catalogs HOT 2
- Review HGNCId - LocusId associations HOT 3
- Warnings thrown HOT 2
- POLG hg38 coordinates HOT 2
- Variant catalog and DAB1 HOT 1
- Release 0.8.1 missing? HOT 3
- Adapt for TRGT output
- Add novel repeat expansions HOT 4
- Add GitHub Actions automation for tests etc instead of Travis-CI
- Variant catalog update hg38 HOT 2
- decompose TRGT VCF
- Normal allele FORMAT field population when decomposing trio?
- Add common STRUC fields to demo definitions - and possibly add another definition conversion command json2bed HOT 1
- Update docs for TRGT mode
- Matching inheritance pattern annotation
- Add missing useful keys from ExHu HOT 1
- Rename MASTER to MAIN HOT 1
- Annotate multi-sample VCF HOT 4
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 stranger.