AstraZeneca-NGS VarDictJava issues

AstraZeneca-NGS / VarDictJava

VarDict Java port

MIT License

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issues

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some variant can't output in two reapeat sample

#397 litun-fkby opened 6 months ago
0
Current and future support for Vardict

#396 alexander-e-f-smith opened 7 months ago
2
the option -3 result

#395 litun-fkby opened 9 months ago
0
question about ODDRATIO

#394 litun-fkby opened 9 months ago
0
Running error

#393 pagnasok opened 10 months ago
0
SNP vs SNV

#392 LeilyR closed 12 months ago
0
Can I get the read names of a variant?

#391 Crispy13 opened 1 year ago
0
Non-reproducible variants called with same command for vardict

#390 KshamaGoyal opened 1 year ago
0
Missing variant / how to interpret vardict log file

#389 Redmar-van-den-Berg opened 1 year ago
0
VarDict calls many insertions in homopolymer regions

#388 Redmar-van-den-Berg opened 1 year ago
0
The AF value VarDict calculate cannot match with IGV result.

#387 GA-1101 opened 1 year ago
0
AF > 1 with DP < VD for some Long deletions

#386 alexander-e-f-smith opened 1 year ago
2
Having trouble downloading Vardict 1.8.3 through wget

#385 ZichanLi opened 1 year ago
2
JAVA ERROR RUNNING VARDICTJAVA

#384 espelpz opened 1 year ago
3
vardict can not call the mutation correctly

#383 wyy1234-github opened 1 year ago
0
VCF merging between Mutect2 and VarDict output fail

#382 lmanchon opened 1 year ago
2
Signal/Noise (highQualityToLowQualityRatio) calculation misleading when no low/bad qual reads are present

#381 rollf opened 1 year ago
0
cram input

#380 GSBaohuaGu opened 1 year ago
1
cram

#379 GSBaohuaGu closed 1 year ago
0
Possible formatting issue in the somatic mode

#378 amunzur opened 1 year ago
0
ADJAF - Adjusted AF for indels due to local realignment

#377 lt11 opened 1 year ago
1
Vardict cannot correctly count the reads in the normal sample

#376 shenzhongjun opened 1 year ago
0
ArrayIndexOutOfBoundsException

#375 ds21uab opened 1 year ago
0
UMI-based variant calling

#374 andreakv93 opened 1 year ago
0
Memory troubles

#373 lt11 closed 1 year ago
8
[SECURITY] Fix Temporary File Information Disclosure Vulnerability

#372 JLLeitschuh opened 1 year ago
0
[SECURITY] Fix Temporary File Information Disclosure Vulnerability

#371 JLLeitschuh opened 1 year ago
0
WGS non-human data -- taking a long time to call a single chromosome

#370 RNAseqer opened 1 year ago
1
Variant reported out of region of interest

#369 PabloCabaleiro opened 1 year ago
1
Does VarDict/VarDictJava work with Long Reads? (Oxford Nanopore)

#368 felixm3 opened 1 year ago
0
EGFR EXON19 frameshit

#367 asmlgkj opened 1 year ago
0
Allele frequency parameter in VarDictJava

#366 ds21uab closed 2 years ago
1
Low VAF variant missing in a region with a set of mismatches on Amplicon data

#365 gaosong0329 opened 2 years ago
0
Using CRAM files with VarDictJava

#364 nvnieuwk closed 2 years ago
2
Deletion is being called as complex variant

#363 lk9-lnx opened 2 years ago
2
Mutation detection failed

#362 calocean opened 2 years ago
3
Is it possible to filter orientation bias?

#361 kimjr89 closed 2 years ago
1
call a vaiant without chr and position, just the following info

#360 asmlgkj opened 2 years ago
4
No line found error in the java version, works in the perl version

#359 rglusic closed 2 years ago
1
Error when trying to run VarDict Java with the nf-core testing workflow

#358 nvnieuwk closed 2 years ago
0
Variant with quality only gets called when decreasing the minimum phred score

#357 rollf closed 2 years ago
4
variation different between Single Sample Mode and Single Sample Mode

#356 wangxuedong930227 opened 2 years ago
1
Paired Variant Calling lost variation

#355 wangxuedong930227 closed 2 years ago
0
-th option

#354 lk9-lnx closed 2 years ago
0
Haploid mutations calling

#353 liuzhen51032 opened 2 years ago
0
werid EGFR variant report

#352 asmlgkj opened 2 years ago
1
Reference forward count column in variant on position: 53242123 A->AC was negative, adjusted to zero.

#351 ds21uab closed 2 years ago
1
Vardict 1.8.3 outputs 37 columns in simple mode

#350 tgeneste closed 2 years ago
6
Variant not passing VarDict filters

#349 aldosr closed 2 years ago
2
Problem upgrading from Perl Vardict to Java Vardict

#348 Graeme-Smith opened 2 years ago
1