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<prev • 67 results • page 1 of 3 • next >
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why and how multi allele gets reported during variant calling in vcf
variant-calling vcf allele snp multi-allele written 21 days ago by genie66 • 20
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Using GIAB exome data to test targetome variant-calling pipeline
variant-calling whole-exome targetome giab written 2.7 years ago by nbhardwaj • 110 • updated 27 days ago by RamRS ♦ 18k
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5 follow
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Keep Format and Individual fields when annotating VCF with VEP
vcf annotation vep variant-calling written 5 months ago by jsneaththompson • 50 • updated 5 weeks ago by emariusb • 0
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Why a true variant is not getting called by Haplotypecaller.
variant-calling haplotypecaller next-gen written 2.6 years ago by AshishKS • 10 • updated 4 months ago by Biostar ♦♦ 20
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What do the freebayes parameters --pooled-continuous/--pooled-discrete mean?
variant-calling next-gen freebayes snp written 4 months ago by markd • 20
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GATK: .ped vs .fam and missing values
variant-calling gatk snp written 6 months ago by rmf • 370 • updated 6 months ago by Kevin Blighe ♦ 30k
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How To Phase Haplotypes In A Highly Polymorphic Genome
vcf variant-calling written 4.7 years ago by Adrian Pelin • 2.2k • updated 8 months ago by Biostar ♦♦ 20
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7 follow
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Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple BAM
variant-calling merge samtools mpileup snp written 20 months ago by Rob • 90 • updated 8 months ago by Biostar ♦♦ 20
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Regenotype vcf using some samples as reference
vcf variant-calling snp written 9 months ago by rmf • 370
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phasing SNPs with 3 siblings
variant-calling snp written 8 months ago by rmf • 370 • updated 8 months ago by Pierre Lindenbaum ♦ 113k
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376
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1
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Identifying variants differing between control/treatment
variant-calling gatk indel snp written 9 months ago by rmf • 370 • updated 9 months ago by Pierre Lindenbaum ♦ 113k
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Genotype calls for a list of variable sites
variant-calling gatk genotype-calling written 12 months ago by Jautis • 260 • updated 12 months ago by Pierre Lindenbaum ♦ 113k
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What does BAF mean?
variant-calling baf written 17 months ago by Brian Bushnell ♦ 16k • updated 16 months ago by bernatgel • 1.3k
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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 19 months ago by aham • 30 • updated 19 months ago by Petr Ponomarenko • 2.5k
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complex indel precludes detection of overlapping SNPs
variant-calling pooled sample freebayes written 19 months ago by harold.smith.tarheel • 4.2k
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Next-Generation Sequecing And Quantitative Traits Association Study
variant-calling ngs sequencing written 4.7 years ago by sorento7 • 30 • updated 23 months ago by Biostar ♦♦ 20
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Extract allele frequencies from VCF
variant-calling vcf crisp written 2.1 years ago by mufernando • 10 • updated 2.1 years ago by Noushin N • 530
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Coming with a result with many VCF files?
vcf variant-calling mutation-calling written 2.5 years ago by morovatunc • 380 • updated 2.3 years ago by Denise - Open Targets • 4.7k
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11 follow
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Variant Calling With Bcftools Call
variant-calling bcftools samtools mpileup written 4.6 years ago by tayebwajb • 90 • updated 2.7 years ago by vladimir.kovacevic • 60
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Sensitivity of variant calling
variant-calling next-gen sequencing written 3.3 years ago by szuszmok • 40 • updated 3.3 years ago by Len Trigg • 1.2k
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16 follow
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Difference Between Somatic And Germline Variant Calling?
variant-calling somatic gatk written 5.1 years ago by William • 4.3k • updated 3.5 years ago by Biostar ♦♦ 20
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5 follow
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When Is A Heterozygous Call Not Heterozygous?
exome variant-calling human written 4.7 years ago by Chris Cole • 670 • updated 3.6 years ago by Biostar ♦♦ 20
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NOT RESETTING NORMAL error using Varscan2
variant-calling somatic varscan2 snp written 3.9 years ago by Jordan • 1.0k • updated 3.9 years ago by Ying W • 3.8k
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41 follow
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Best Software For Detection Of Somatic Mutations From Matched Tumor:Normal Ngs Data
variant-calling somatic mutation variant snv written 6.6 years ago by Travis • 2.8k • updated 3.9 years ago by Malachi Griffith ♦ 16k
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Problem generating VCFs from MuTect variant caller
variant-calling vcf mutect written 4.1 years ago by Jordan • 1.0k
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Vcf File From Mpileup ... What Next
variant-calling snps samtools written 4.7 years ago by Dataminer • 2.5k • updated 4.2 years ago by Biostar ♦♦ 20
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Need help understanding read depth for somaticsniper vcf's
variant-calling vcf somaticsniper depth written 4.3 years ago by Jordan • 1.0k
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How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
vcf variant-calling sequencing written 5.0 years ago by Luca Beltrame • 190 • updated 4.4 years ago by Biostar ♦♦ 20
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Is there a way to know which variant caller has been used for calling variants in TCGA?
variant-calling tcga pipeline written 4.5 years ago by Jordan • 1.0k • updated 4.5 years ago by Charles Warden ♦ 5.5k
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Comparing Exomes -How to get ALL variants
exome variant-calling samtools written 4.5 years ago by bernatgel • 1.3k
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