Comments (1)
Hi,
We used chr1-22 as a default option because we thought that would be the most likely usage, but users can specify any chromosome for variant calling. In particular, using -wgs_contigs_type all
option will run NanoCaller on all sequences present in reference fasta file. We will update the default option to include chrX and chrY as well. We did test out models on chrX of NA12878 and found same performance as for other chromosomes, even though none of our models were trained on chrX.
from nanocaller.
Related Issues (20)
- index file .fai error HOT 2
- NanoCaller for microbial genomes
- High coverage genotyping outputs only G HOT 10
- Using NanoCaller with BED files and Indel Calling Gives Empty VCF files HOT 3
- bcf tools error and error in whatshap HOT 4
- docker build fails due to missing NanoCaller_WGS file HOT 2
- Models compatible with Guppy6.x.x HOT 1
- Failed installation HOT 2
- bam file issue!
- what do you want to fill in the β--chromβ option? I read the instructions and there is no document. HOT 22
- header error in variant_calls.snps.phrased.vcf.gz HOT 6
- Unnormal results ! HOT 8
- AD (allelic depth) field HOT 5
- TypeError HOT 2
- Supporting reads HOT 3
- conda install incompatibilities HOT 2
- Models for R10.4.1 dorado
- Module not found tqtm after install with conda HOT 1
- Error phasing large chromosomes (550mb chromosome) due to inability to store as tbi index HOT 3
- Applications HOT 12
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
π 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. πππ
-
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 β€οΈ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from nanocaller.