dnanexus-rnd GLnexus issues

dnanexus-rnd / GLnexus

Scalable gVCF merging and joint variant calling for population sequencing projects

Apache License 2.0

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issues

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Inquiry Regarding IOError Encountered During Multiple Rounds of Merging gVCF Files Using GLnexus

#313 zhanxiangzong opened 3 days ago
1
Merging vcf files error with glnexus:v1.2.7

#312 poddarharsh15 opened 2 months ago
0
RNC is ".." on site with DP=1, but it's "D." on site with DP=2

#311 esctrionsit opened 2 months ago
0
Updating the required depth to 2 in config.

#310 kishwarshafin opened 3 months ago
0
bad_alloc

#309 bbimber opened 4 months ago
2
Optimizing memory usage

#308 georgiiprovisor opened 4 months ago
0
Update OS version to supported release

#307 thebigcorporation opened 4 months ago
0
RNC field not comma-separated

#306 holtgrewe opened 4 months ago
0
std::logic_error when running Basic Command

#305 cantlap opened 5 months ago
0
Failed Install when using Non-Docker file Install

#304 cantlap opened 5 months ago
0
malformed merged gVCF from DV config

#303 Overcraft90 closed 5 months ago
1
IOError: RocksDB kIOError

#302 fsw10 opened 6 months ago
0
Failed to open exemplar gVCF file

#301 nat6an closed 4 months ago
3
Genotyping specific sites from GVCF

#300 bwubb opened 7 months ago
0
Invalid: allele is not a DNA sequence

#299 bartcharbon opened 8 months ago
0
GLnexus , error while combining gvcf files

#298 DineshRavindraRaju opened 8 months ago
3
GVCFs : std::bad_alloc

#297 DineshRavindraRaju closed 8 months ago
0
Merging GVCF or VCF?

#296 alanlamsiu opened 8 months ago
0
./runglnexus.sh: line 2: 20506 Terminated

#295 gotouerina opened 8 months ago
0
glnexus_cli with Singularity - GLnexus.DB "directory already exists"

#294 ama249 closed 7 months ago
2
deepvarinat

#293 Tonitsk8264 opened 9 months ago
0
Merging and variant loss

#292 Fred-07 opened 9 months ago
0
X and Y-chromosome calling

#291 shaze opened 1 year ago
0
Is capnp-test failure a cause of worry?

#290 Axze-rgb opened 1 year ago
0
The configuration presents for DeepVariant whole genome sequencing

#289 xunzhizhang opened 1 year ago
1
Exception deserializing BCF bucket

#288 lvclark opened 1 year ago
0
error

#287 shinlin77 opened 1 year ago
3
(DP) Depth value being incorrectly set to 0 for calls

#286 carsonhh opened 1 year ago
2
More details needed on configuration options for custom config

#285 jcm6t opened 1 year ago
0
N+1 calling code

#284 Yask-Gupta opened 1 year ago
0
Please provide instructions on how to use singularity to run GLnexus

#283 hoyonh opened 1 year ago
1
No filter info after merging deepvariant gvcfs.

#282 JieHe233 opened 1 year ago
0
glibc error when using conda version

#281 xiekunwhy opened 1 year ago
0
N+1 calling as way to enhance small dataset accuracy

#280 JosephLalli opened 1 year ago
0
BED file not taken into account

#279 ThatMatin opened 1 year ago
6
Resume GLNexus for an existing GLnexus.DB database

#278 zhoudreames closed 1 year ago
0
out of memory in genotyping stage

#277 Archieyoung opened 1 year ago
0
Glnexus failed to joint the g.vcf file generated from GATK Haplotypecaller with BP_resolution

#276 Drdreammaerd opened 2 years ago
0
GLnexus CLI generates VCFs missing GATK-compatible INFO fields

#275 bh007 opened 2 years ago
2
Long reads sequencing data

#274 LiShuhang-gif opened 2 years ago
0
can't compile GLnexus on RHEL 7.9 (LZ4 errors)

#273 ponomarevsy opened 2 years ago
1
Invalid: BCFKeyValueData::import_gvcf:invalid data set name

#272 aguygarner opened 2 years ago
0
adding glnexus to bioconda

#271 ramprasadn opened 2 years ago
5
Any configuration preset for paftools caller?

#270 elcortegano opened 2 years ago
0
Failed to genotype: Invalid: genotyper

#269 meghatron21 opened 2 years ago
4
Test failures on ARM

#268 jdidion opened 2 years ago
0
Build on CentOS7

#267 james-vincent opened 2 years ago
7
problems merging variants with DeepVariant_WES

#266 tbrunetti closed 2 years ago
1
Incorrect variant calls

#265 gevro closed 2 years ago
1
cannot join g.vcf files using glnexus

#264 kostasgalexiou closed 3 years ago
12