Comments (3)
@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?
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@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
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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
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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
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