Comments (3)
kishwarshafin
commented on August 27, 2024
@liukeweiaway are these human samples? Looks like the program is running fine, it's just not finding any variants. Can you please explain a bit more to what exactly is your data?
from deepvariant.
liukeweiaway
commented on August 27, 2024
@liukeweiaway are these human samples? Looks like the program is running fine, it's just not finding any variants. Can you please explain a bit more to what exactly is your data?
It is a human sample, and the generated data is the same as the reference genome. When no mutation is detected, the program will not stop and will continue to run. You need to stop the program manually.
chr6_CYP21A2.bwa.read1.fastq.gz
chr6_CYP21A2.bwa.read2.fastq.gz
from deepvariant.
kishwarshafin
commented on August 27, 2024
I see, can you please update to 1.6.1? I think you are getting stuck in the bug of 1.6.0 that we fixed in 1.6.1
from deepvariant.
Related Issues (20)
- No vcf output after running HOT 1
- ValueError: Reference contigs span 3137161264 bases but only 63025520 bases (2.01%) were found in common among our input files. Check that the sources were created on a common genome reference build. HOT 1
- I read DeepVariant essay and want to download some data. HOT 4
- Error while running tests on Calling variants in non-autosomal contigs HOT 4
- Memory issue while running deepvariant_1.6.0.sif with ONT_R104 HOT 7
- DeepVariant running slow HOT 1
- AssertionError: Some objects had attributes which were not restored: HOT 4
- I have a question about training DeepVariant. HOT 2
- Source code compilation of DeepVariant failed HOT 3
- What is deepvariant trained on? HOT 3
- DeepVariant Channel clarification HOT 2
- Info Singularity HOT 1
- dealing with chimeric alignments HOT 3
- Question about RNA-seq HOT 5
- Running with Conda HOT 4
- Checkpoint "Model files do not exist" when testing custom model HOT 1
- make_examples_core.py gets stuck on STAR aligned rnaseq BAM (deepvariant 1.6.1) HOT 1
- No output files (VCFs) for all genome HOT 7
- No output vcf obtained from custom model HOT 1
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 deepvariant.