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deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
BSD 3-Clause "New" or "Revised" License
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Running DeepVariant on BQSR samples
#908
FriederikeHanssen
opened
5 days ago
1
Suggestions for analyzing ONT R9 data
#907
SHuang-Broad
opened
6 days ago
1
Germline variant calling from amplicon sequencing
#906
joowkim
closed
1 week ago
2
Is it possible to run deepvariant in discreet stages with discreet resource requests?
#905
CanWood
closed
2 weeks ago
2
Low hom_ref recall during model training for new organism
#904
DanJeffries
opened
2 weeks ago
3
Very slow performave for make_example
#903
Lionward
closed
2 weeks ago
2
Unable to build docker image from source due to multiple reasons
#902
sushruta
opened
3 weeks ago
6
postprocess_variants step is erroring out in quickstart example
#901
sushruta
opened
3 weeks ago
3
Paralogous Regions Germline SNV Calling
#900
sounkou-bioinfo
closed
3 weeks ago
2
Adding new blog post.
#899
pichuan
closed
1 month ago
0
Training pacbio HIFI data using the trained short-read model as a gold standard
#898
ZuyaoLiu
closed
3 weeks ago
1
Typo in `docs/deepvariant-details.md`
#897
Sunjnn
closed
1 month ago
1
hap.py benchmarking
#896
alisamatisse
closed
3 weeks ago
3
ATAC-seq
#895
westonelison
closed
4 weeks ago
1
issue with retrained model
#894
sophienguyen01
closed
4 weeks ago
3
question about pileup image height
#893
sophienguyen01
closed
4 weeks ago
4
Variant not called although obvious in IGV
#892
hagen-wende
closed
1 month ago
4
License of the DeepVariant model
#891
sanchit-misra
closed
1 month ago
4
Recommendations for variant call from long-read RNA-seq
#890
camelest
closed
1 month ago
2
Is deepvariant appropriate for my data.
#889
abosco4406
closed
1 month ago
1
Call variant from bam file which includes methylation tags (MM/ML)
#888
timizeng
closed
1 month ago
1
Question about intermediate_results
#887
0809zheng
closed
1 month ago
2
D
#886
desmodus1984
closed
1 month ago
4
Discussion on Multi-GPU Training
#885
0809zheng
closed
2 months ago
1
Compatibility of DeepSomatic Tumor-Only Mode for Short-Read RNA-Seq without Control Sample
#884
Yousuk-Song
closed
2 months ago
1
Running deepvariant within Nextflow DSL2
#883
dbhayal9
closed
1 month ago
6
adding acknowledgement for Maria
#882
lucasbrambrink
closed
2 months ago
0
Deepvariant results quality filtration
#881
esraaelmligy
closed
1 month ago
5
VAF != AD[1]/(AD[0]+AD[1])
#880
minw2828
closed
2 months ago
1
Fatal Python error: Segmentation fault
#879
jellycatfish195
closed
2 months ago
8
Retraining DeepVariant without trios data?
#878
desmodus1984
closed
1 month ago
9
Fatal Python error: Aborted
#877
Yousuk-Song
closed
2 months ago
6
No evaluation statistics for het and homalt calls during model training
#876
DanJeffries
closed
2 months ago
13
Mitochondial contig variants
#875
sounkou-bioinfo
closed
2 months ago
2
Deepvariant Structural Variants for ONT
#874
DineshRavindraRaju
closed
2 months ago
1
CPU and GPU using
#873
weiranmmm
closed
2 months ago
2
How do you see the future of CNN outside of human genomics?
#872
ghost
closed
2 months ago
4
Troubleshooting Dockerfile for DeepVariant on Mac M1: Issues with Bazel
#871
ghost
closed
2 months ago
2
[libprotobuf ERROR external/com_google_protobuf/src/google/protobuf/wire_format_lite.cc:584]
#870
alisamatisse
closed
3 months ago
2
No output vcf obtained from custom model
#869
bioinformaticaomicalabs
closed
2 months ago
9
No output files (VCFs) for all genome
#868
vera-gomes
closed
2 months ago
7
make_examples_core.py gets stuck on STAR aligned rnaseq BAM (deepvariant 1.6.1)
#867
melop
closed
3 months ago
1
Checkpoint "Model files do not exist" when testing custom model
#866
helizabeth1103
closed
2 months ago
2
Running with Conda
#865
lynnjo
closed
3 months ago
4
Question about RNA-seq
#864
SirKuikka
closed
3 months ago
5
dealing with chimeric alignments
#863
alisamatisse
closed
3 months ago
3
Info Singularity
#862
gambalab
closed
3 months ago
1
DeepVariant Channel clarification
#861
ejc043
closed
3 months ago
2
What is deepvariant trained on?
#860
ejc043
closed
3 months ago
3
Source code compilation of DeepVariant failed
#859
Schroedingers0216
closed
3 months ago
3
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