Comments (3)
@kmsmith137 added this and most of the hardcoded paths to to the config.yaml and accesses them through that in Snakemake pipeline
So that and #6 #7 #9 can all be modified there as needed
from covid-19-signal.
can we have it accept a file similar to here: https://github.com/artic-network/artic-ncov2019/tree/master/primer_schemes/nCoV-2019/V3
from covid-19-signal.
This is related to #25 as the scheme requires changing how trimming is done.
If someone can generate a BED scheme for the wuhan primers we can just move entirely to this format.
from covid-19-signal.
Related Issues (20)
- Lineage Assignment Failure preventing postprocess HOT 1
- Switch remaining default output to freebayes vs iVar
- Primer Scheme Correction HOT 1
- Revisit output layout
- Add Continuous Integration tests and linting
- Fix containerization
- Convert rules for wrapped tools to official wrapper
- support for pangolin v3.0.1 HOT 2
- ValidationError: 'sample' is a required property HOT 2
- Incorporate scorpio calls into report
- Galaxy workflow?
- Support IonTorrent .bam input
- Cleanup
- RuleException in line 549 of: filepath/Snakefile: 'Params' object has no attribute 'unlabelled_output_dir' HOT 2
- Update npm nextclade to the proper nextclade_cli HOT 1
- SARS-CoV-2 workflow comparison - kindly check if your work is represented correctly HOT 2
- gunzip silently fails when running get_data_dependencies.sh HOT 1
- Pipeline fails at run_lineage_assignment when trying to use Nextclade version 3.0.0 HOT 4
- Dependency issues on new install with ivar conda environment HOT 5
- Artic-ncov2019 primer scheme V5.3.2 HOT 3
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 covid-19-signal.