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<prev • 70 results • page 1 of 3 • next >
4
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1
answer
113
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1
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Remove variants that do not map to human genome
vcf variant-calling qc written 5 weeks ago by john.michel.rouhana • 0 • updated 5 weeks ago by Pierre Lindenbaum ♦ 121k
2
votes
1
answer
182
views
5 follow
1
answer
Genotyping diploid organisms from Sanger AB1 files
variant-calling sanger written 3 months ago by ognjen011 • 170 • updated 3 months ago by trausch • 1.3k
3
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2
answers
1.8k
views
5 follow
2
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Errors With Apt-Get When Attempting To Install Somaticsniper
variant-calling written 6.3 years ago by N • 10 • updated 5 months ago by Biostar ♦♦ 20
19
votes
5
answers
19k
views
18 follow
5
answers
Combining Data Of Multiple Vcfs Into One.
vcf variant-calling written 6.0 years ago by Sheila • 300 • updated 5 months ago by Shicheng Guo • 7.5k
5
votes
1
answer
636
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5 follow
1
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Why is 0/0 homozygous reference call in VCF useful information?
vcf variant-calling sequencing written 7 months ago by lillian.thistlethwaite • 10 • updated 6 months ago by Biostar ♦♦ 20
2
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0
answers
442
views
0
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why and how multi allele gets reported during variant calling in vcf
variant-calling vcf allele snp multi-allele written 8 months ago by genie66 • 20
0
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0
answers
1.5k
views
0
answers
Using GIAB exome data to test targetome variant-calling pipeline
variant-calling whole-exome targetome giab written 3.3 years ago by nbhardwaj • 130 • updated 9 months ago by RamRS ♦ 22k
6
votes
1
answer
1.2k
views
6 follow
1
answer
Keep Format and Individual fields when annotating VCF with VEP
vcf annotation vep variant-calling written 14 months ago by jsneaththompson • 70 • updated 9 months ago by MasMarius • 10
9
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1
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1.8k
views
1
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Why a true variant is not getting called by Haplotypecaller.
variant-calling haplotypecaller next-gen written 3.3 years ago by AshishKS • 10 • updated 12 months ago by Biostar ♦♦ 20
1
vote
0
answers
814
views
0
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What do the freebayes parameters --pooled-continuous/--pooled-discrete mean?
variant-calling next-gen freebayes snp written 12 months ago by markd • 20
1
vote
1
answer
478
views
1
answer
GATK: .ped vs .fam and missing values
variant-calling gatk snp written 15 months ago by rmf • 670 • updated 15 months ago by Kevin Blighe ♦ 44k
4
votes
1
answer
1.9k
views
1
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How To Phase Haplotypes In A Highly Polymorphic Genome
vcf variant-calling written 5.4 years ago by Adrian Pelin • 2.3k • updated 16 months ago by Biostar ♦♦ 20
6
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1
answer
2.2k
views
7 follow
1
answer
Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple BAM
variant-calling merge samtools mpileup snp written 2.3 years ago by Rob • 90 • updated 16 months ago by Biostar ♦♦ 20
1
vote
2
answers
686
views
2
answers
Regenotype vcf using some samples as reference
vcf variant-calling snp written 17 months ago by rmf • 670
0
votes
1
answer
567
views
1
answer
phasing SNPs with 3 siblings
variant-calling snp written 17 months ago by rmf • 670 • updated 17 months ago by Pierre Lindenbaum ♦ 121k
2
votes
1
answer
556
views
1
answer
Identifying variants differing between control/treatment
variant-calling gatk indel snp written 17 months ago by rmf • 670 • updated 17 months ago by Pierre Lindenbaum ♦ 121k
0
votes
1
answer
464
views
1
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Genotype calls for a list of variable sites
variant-calling gatk genotype-calling written 20 months ago by Jautis • 270 • updated 20 months ago by Pierre Lindenbaum ♦ 121k
7
votes
1
answer
6.1k
views
1
answer
What does BAF mean?
variant-calling baf written 2.1 years ago by Brian Bushnell ♦ 16k • updated 2.0 years ago by bernatgel • 1.9k
0
votes
1
answer
1.2k
views
1
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Calculate mean_GQ value from individual GQ values in a multi-sample VCF file
vcf gatk next-gen variant-calling sequencing written 2.3 years ago by aham • 40 • updated 2.3 years ago by Petr Ponomarenko • 2.6k
0
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0
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925
views
0
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complex indel precludes detection of overlapping SNPs
variant-calling pooled sample freebayes written 2.3 years ago by harold.smith.tarheel • 4.4k
2
votes
0
answers
1.5k
views
0
answers
Next-Generation Sequecing And Quantitative Traits Association Study
variant-calling ngs sequencing written 5.4 years ago by sorento7 • 30 • updated 2.6 years ago by Biostar ♦♦ 20
3
votes
1
answer
1.6k
views
1
answer
Extract allele frequencies from VCF
variant-calling vcf crisp written 2.8 years ago by mufernando • 10 • updated 2.8 years ago by Noushin N • 550
1
vote
1
answer
769
views
1
answer
Coming with a result with many VCF files?
vcf variant-calling mutation-calling written 3.2 years ago by morovatunc • 400 • updated 3.0 years ago by Denise - Open Targets • 5.0k
4
votes
6
answers
14k
views
11 follow
6
answers
Variant Calling With Bcftools Call
variant-calling bcftools samtools mpileup written 5.2 years ago by tayebwajb • 90 • updated 3.4 years ago by vladimir.kovacevic • 60
2
votes
1
answer
1.5k
views
1
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Sensitivity of variant calling
variant-calling next-gen sequencing written 4.0 years ago by szuszmok • 40 • updated 4.0 years ago by Len Trigg • 1.3k
46
votes
2
answers
20k
views
16 follow
2
answers
Difference Between Somatic And Germline Variant Calling?
variant-calling somatic gatk written 5.8 years ago by William • 4.4k • updated 4.2 years ago by Biostar ♦♦ 20
7
votes
1
answer
2.9k
views
5 follow
1
answer
When Is A Heterozygous Call Not Heterozygous?
exome variant-calling human written 5.4 years ago by Chris Cole • 680 • updated 4.3 years ago by Biostar ♦♦ 20
1
vote
1
answer
2.6k
views
1
answer
NOT RESETTING NORMAL error using Varscan2
variant-calling somatic varscan2 snp written 4.5 years ago by Jordan • 1.1k • updated 4.5 years ago by Ying W • 3.9k
93
votes
6
answers
31k
views
43 follow
6
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Best Software For Detection Of Somatic Mutations From Matched Tumor:Normal Ngs Data
variant-calling somatic mutation variant snv written 7.2 years ago by Travis • 2.8k • updated 4.6 years ago by Malachi Griffith ♦ 17k
2
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0
answers
2.0k
views
0
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Problem generating VCFs from MuTect variant caller
variant-calling vcf mutect written 4.8 years ago by Jordan • 1.1k
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