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61 Open 6 Closed
61 Open 6 Closed
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Issues list

how to filter using vcf from multiple samples generated by mpileup2somatic
#67 opened Feb 19, 2024 by weiydcn
varscan2 output can't be fed to snpEff. ID column missing?
#66 opened Feb 2, 2024 by gabrielet
Why genotype and depth representations are inconsistent
#65 opened Jun 15, 2023 by fjptwenger
filter for pielup2cns not working
#64 opened Jan 9, 2023 by zoeward-nz
two mutations on one pos can't call out
#63 opened Feb 16, 2022 by user-tq
log4j
#62 opened Jan 26, 2022 by myourshaw
Reads supporting a variant
#61 opened Mar 22, 2021 by biounix
How to pipe deovo trio with samtool mpileup?
#59 opened Jan 13, 2021 by snijesh
1
Not filtering reverse strand's strand bias
#57 opened Nov 25, 2020 by svarona
mpileup2snp do not detect all snps
#56 opened Sep 25, 2020 by wwang-chcn
NumberFormatException in varscan somatic
#55 opened Sep 22, 2020 by Jasondai9
1
Malformed VCF output
#54 opened Jul 21, 2020 by jfnavarro
Strand filter applied when outputting to tabular format but not VCF
#53 opened May 21, 2020 by nh13
2.4.4 "release" is actually source
#52 opened May 8, 2020 by flowers9
1
filtering error - "Too many parsing exceptions encountered"
#51 opened Jan 27, 2020 by yeroslaviz
1
0 had sufficient coverage for comparison
#50 opened Oct 22, 2019 by jingmeng-bioinformatics
1
Varscan mpileup2cns error: Input file(s) were not ready for parsing after 100 5-second cycles.
#49 opened Oct 17, 2019 by besnarda
Missing filters in VarScan fpfilter output VCF header
#48 opened Oct 1, 2019 by Stikus
1
Commas in the vcf-files_FILTER field
#47 opened Sep 30, 2019 by golubnikova
varscan report wrong DP related values, almost 50% off
#46 opened Aug 20, 2019 by yingchen69
2
pileup2snp output
#45 opened Aug 3, 2019 by Eugene79
Mergesegments.pl output question
#44 opened May 17, 2019 by JuanmaMedina
Ambiguous allele (UIPAC) not properly handled according to VCF specs 4.3
#43 opened Apr 5, 2019 by huguesfontenelle
2
MNV or two SNV
#42 opened Mar 8, 2019 by aledj2
1
Varscan trio de novo mutation calling too slow
#41 opened Jan 19, 2019 by shannjiang
ProTip! Exclude everything labeled bug with -label:bug.