aquaskyline / Clairvoyante

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

aquaskyline/Clairvoyante Issues

No output in commands.sh
Closed 3 years ago1
BAM:the genome region you specified has no read cover
Closed 3 years ago2
PacBio hifi
Closed 4 years ago1
PyPy
Closed 4 years ago1
Check that BAM is indexed
Closed 4 years ago1
How is the QUAL metric calculated?
Closed 4 years ago2
GPU conda install docs remove Clairvoyante
Closed 5 years ago2
Does the pacBio model you have trained can be used for PacBio CCS reads?
Closed 5 years ago1
Applying full support for the IUPAC nucleotide code standard for better robustness?
Closed 5 years ago4
Suggesting slight improvement error when no contig specified
Closed 5 years ago1
exit for empty bam
Closed 5 years ago1
samtools should be added as a conda requirement
Closed 5 years ago1
SNV report is not consistent with the bam file
Closed 5 years ago1
callVarBam.py fails with taskset: failed to set pid 0's affinity: Invalid argument
Closed 5 years ago1
Is model of human genome applicable to variant calling on bacterial data ?
Closed 5 years ago1
Failed to tabix the generated vcf files
Closed 5 years ago2
Non-human data?
Closed 5 years ago1
TrainingModels and new Bam file
Closed 5 years ago1
GetTruth.py: error: unrecognized arguments: --noGT 1
Closed 5 years ago13
trainedModels directory
Closed 5 years ago1
cannot connect to X server localhost
Closed 5 years ago2
program crashes internally but still writes VCF and successfully returns 0
Closed 5 years ago1
High runtime, high memory, low precision and recall using NA12878 data
Closed 5 years ago2
conda installation intervaltree
Closed 5 years ago3
Error running Clairvoyante callVarBam
Closed 5 years ago2
Score distribution
Closed 5 years ago1
Allele frequency greater than 1
Closed 5 years ago7
Non-model species training
Closed 5 years ago7
genotype and estimated allele frequency
Closed 5 years ago3
taskset fails to set pid XXX's affinity
Closed 5 years ago1
FILTER and INFO fields
Closed 5 years ago2
Is a docker image available?
Closed 5 years ago2
zsh: no such option
Closed 5 years ago2
AttributeError: 'IntervalTree' object has no attribute 'search'
Closed 5 years ago6
genome assembly
Closed 5 years ago1
taskset: failed to parse CPU list
Closed 5 years ago4
problem in
Closed 5 years ago6
can't call variant using bam file from minmap2
Closed 5 years ago3
Error when no variant identified as result of low coverage
Closed 5 years ago2
PASS flag for SNP and VCF header
Closed 6 years ago2
TypeError in callVarBam.py
Closed 6 years ago2