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302 Open 1,668 Closed
302 Open 1,668 Closed
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Issues list

cmp_vector_strings() in filter.c complains that nvalues!=str_value.l for VCF lines missing the GT format
#2314 opened Nov 8, 2024 by freeseek
Error: bcftools csq --- splice_build_hap: Assertion `splice->tr->beg <= rbeg' failed.
#2313 opened Nov 7, 2024 by sbgonenc
bcftools header check err
#2312 opened Nov 5, 2024 by xiucz
2
seg fault for reheader -o
#2311 opened Oct 30, 2024 by Ahuiting
3
How to Generate Haplotype 1 and 2 FASTA Files Using Phased VCF from HiPhase
#2310 opened Oct 24, 2024 by ClarenceHsiang
1
Bcftools view——locate problematic genotype in GT field
#2309 opened Oct 24, 2024 by Lloyd-LiuSiyi
4
Trying to understand mpileup output format
#2308 opened Oct 24, 2024 by anderspitman
3
bcftools annotate - tag ID not defined
#2302 opened Oct 15, 2024 by ValentinaPeona
3
Issue with bcftools annotate
#2297 opened Sep 30, 2024 by HVHunt
1
bcftools csq: Change chromosome name requirement.
#2294 opened Sep 28, 2024 by niederhuth
1
Error "Failed to read from standard input: unknown file type" with Gzipped BAM Files
#2293 opened Sep 27, 2024 by Silvia-lme
1
How to populate Fisher test annotation
#2287 opened Sep 26, 2024 by pd3
1
Document / Improve / Polish / Fix --indels-2.0 bug D1: Difficult enhancement P2: Desirable
#2280 opened Sep 17, 2024 by jkbonfield
3
Significant difference between IDV and AD when calling certain RNA-seq indels with mpileup
#2277 opened Sep 12, 2024 by luyh-xp
2
8
Variable expansion issue with +setGT? [$VARIABLE-] isn't working...
#2276 opened Sep 9, 2024 by goeckeritz
1
annotate add INFO/tag form CHROM-POS-REF-ALT
#2273 opened Sep 6, 2024 by user-tq
annotate ID for multi-allelic sites
#2264 opened Aug 20, 2024 by ikarus97
1
Remove the * ALT Allele Reporting From a g.vcf Before (or After) Genotyping
#2258 opened Aug 14, 2024 by jon4thin
1
bcftools mpileup resulting in downstream unparsable vcf record with allele M needs-feedback
#2256 opened Aug 13, 2024 by anscholes
1
bcftools concat retry mechanisms? htslib-dependent Cannot be fixed until htslib is fixed
#2245 opened Aug 6, 2024 by graphenn
2
Bcftools mpileup needs-feedback
#2237 opened Jul 26, 2024 by Mashindersingh
1
Add --verbosity flag like samtools
#2235 opened Jul 25, 2024 by pettyalex
1
[mpileup2] How does mpileup choose the reads for later calling, and is the -d flag behaving strangely? D1: Difficult enhancement htslib-dependent Cannot be fixed until htslib is fixed
#2234 opened Jul 25, 2024 by goeckeritz
1
How does bcftools isec identify the same sites
#2230 opened Jul 23, 2024 by ym-chen
1
Merge adjacent sites into a complex D1: Difficult P2: Desirable
#2229 opened Jul 19, 2024 by xfk274280
1
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