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questions
0
votes
1
reply
411
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Pileup of mapped diploid
diploid
Pileup
11 months ago by
Axzd
▴ 80
2
votes
5
replies
1.1k
views
Calling variants from a diploid assembly mapped on a haploid reference, tool suggestion?
SNP
phased
diploid
updated 14 months ago by
GenoMax
149k • written 14 months ago by
Axzd
▴ 80
4
votes
2
replies
960
views
BBtools bug in reporting the number of substitutions in the console output, it seems to report insanely high rates of heterozygosity
SNP
bbtools
updated 14 months ago by
harold.smith.tarheel
★ 5.0k • written 14 months ago by
Axzd
▴ 80
15
votes
20
replies
2.9k
views
Bbtools callvariant multisample mode, + base recalibration
Bbtools
15 months ago by
Axzd
▴ 80
2
votes
4
replies
1.3k
views
BBtools callvariants.sh
SNP
bbtools
alignment
updated 16 months ago by
Brian Bushnell
20k • written 20 months ago by
Axzd
▴ 80
1
vote
2
replies
955
views
Help me understand "for stripped" in bcftools isec output
bcftools
SNP
updated 16 months ago by
GenoMax
149k • written 16 months ago by
Axzd
▴ 80
1
vote
3
replies
1.0k
views
Most sensible way to find private SNPs from a multisamples vcf with bcftools
bcftools
SNP
vcf
16 months ago by
Axzd
▴ 80
20
votes
29
replies
3.8k
views
6 follow
Using bcftools to find unique alt homozygous sites
bcftools
updated 16 months ago by
Pierre Lindenbaum
165k • written 16 months ago by
Axzd
▴ 80
2
votes
3
replies
769
views
How would you define homologous windows between 2 genomes?
genomics
comparison
mapping
16 months ago by
Axzd
▴ 80
2
votes
1
reply
686
views
Reducing BWA mem seed length when a genome is highly heterozygous?
alignment
bwa
updated 16 months ago by
Brian Bushnell
20k • written 17 months ago by
Axzd
▴ 80
0
votes
0
replies
404
views
Fastest way to find private SNPs for each sample
SNP
17 months ago by
Axzd
▴ 80
0
votes
1
reply
541
views
Expanding gVCF box from GATK
GATK
VCF
gVCF
updated 18 months ago by
Jeremy Leipzig
23k • written 18 months ago by
Axzd
▴ 80
2
votes
4
replies
1.1k
views
Is there a more elegant way to print the list of all regions from a bed file?
awk
18 months ago by
Axzd
▴ 80
5
votes
4
replies
1.3k
views
Find groups of SNP in a multi sample VCF with bcftools
vcf
SNP
bcftools
16 months ago by
Axzd
▴ 80
3
votes
6
replies
1.6k
views
multisample vcf filter with bcftools, condition true for ALL samples
vcf
bcftools
updated 20 months ago by
GenoMax
149k • written 20 months ago by
Axzd
▴ 80
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