google/deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
PythonBSD-3-Clause
Issues
- 0
Fix male VCF after calling without --haploid_contigs="chrX,chrY" and/or --par_regions_bed parameters
#825 opened by NourMarzouka - 8
Homozygous GT value while IGV shows otherwise
#824 opened by asalimih - 7
- 4
- 7
- 13
- 0
- 4
DeepTrio from 1.6.0 : how to isolate de novo calls from trio VCF ?
#779 opened by francois-lecoquierre - 8
BrokenPipeErro during postprocess_variants
#804 opened by LogCrab - 6
Merging vcf files error with glnexus:v1.2.7
#815 opened by poddarharsh15 - 10
Output files are missing after running deepvariant.
#810 opened by githubtefo - 3
Info ONT R10.4.1 data
#821 opened by gambalab - 9
Issues with Incompatible TensorRT libraries in docker image google/deepvariant:latest-gpu and google/deepvariant:1.6.1-gpu
#819 opened by nlopez94 - 2
- 6
Dynamic cast failed
#812 opened by Carl-labhub - 14
question for INDEL variant calling
#813 opened by sophienguyen01 - 1
Merging gvcf with GLnexus introduces non-zero heterozygous PL in hemizygous PAR
#811 opened by ASLeonard - 5
Question about the time it takes for VC analysis
#814 opened by bkurtoglu - 3
Highest mapping quality = 42 in bowtie2
#809 opened by Wenfei-Xian - 6
unable to run deepvariant using conda
#806 opened by Zer0day-0 - 13
error in training DeepVariant
#802 opened by sophienguyen01 - 3
Fatal Python error: Segmentation fault
#807 opened by navishkumarb - 1
- 8
Error running DeepVariant via singularity
#783 opened by malonzm1 - 4
RNA-seq pre-processing
#791 opened by j0ntt - 1
Question about training
#805 opened by gambalab - 3
- 12
Fatal Python error: Segmentation fault
#794 opened by baozg - 4
Restarting from post process variants step of deeptrio
#803 opened by gevro - 2
Error about expected cur_seq.size() < Max_READ_LEN
#798 opened by OZTaekOppa - 10
Issue testing custom model
#797 opened by helizabeth1103 - 4
- 2
How to merge Pacbio gvcfs?
#796 opened by rabbitdsy - 2
Singularity import issue and possible solution
#795 opened by YuheCheng62 - 2
How to set threshold to filter vcf files
#800 opened by Tonitsk8264 - 1
Missing --gpus flag in deeptrio
#799 opened by gevro - 4
- 4
Developers notes / environment for modifying code
#792 opened by rickymagner - 3
- 4
- 4
Error running DeepVariant
#782 opened by malonzm1 - 6
ouput variants from tool
#775 opened by NIBIL401 - 2
- 2
Question about retraining DeepVariant
#788 opened by rickymagner - 5
Not all shards generated
#776 opened by ErinKinghorn - 3
Somatic and germline variants
#784 opened by j0ntt - 1
model_type for ONT WGS data
#785 opened by HelloYanming - 4
The model files model/model.ckpt* do not exist
#777 opened by MetteBoge - 2
RNA-seq model compatibility
#781 opened by malonzm1 - 0
Errors running DeepVariant with Singularity
#780 opened by malonzm1