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<prev • 840 results • page 1 of 28 • next >
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GATK AnalyzeCovariates No improvement/Sequencing Bias Removal
gatk bqsr written 21 hours ago by timothy.delory • 0
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74
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1
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Confused about the AF tag in VCF from samtools/bcftools mpileup
vcf gatk samtools af variants written 4 days ago by Makplus T • 70 • updated 4 days ago by Renesh • 1.9k
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83
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How to explain that mutations called by Mutect2 are inconsistent with what I saw in iGV?
gatk igv mutation mutect2 written 5 days ago by Makplus T • 70 • updated 5 days ago by Kevin Blighe ♦ 61k
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52
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GATK version differences
gatk written 5 days ago by MAPK • 1.5k
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72
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How to merge 2 VCF files that was previously extracted from same file
software error vcf variant snp gatk written 10 days ago by phongphak.06 • 10
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GATK Mutect2 Panel-Of-Normals generation
gatk panel-of-normal non-tumor wes mutect2 written 14 days ago by cocchi.e89 • 80 • updated 14 days ago by WouterDeCoster ♦ 44k
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81
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GATK-HaplotypeCaller results generate records with read depth of zero?
haplotypecaller gatk readdepth snp sequencing written 19 days ago by xie186 • 0 • updated 19 days ago by Pierre Lindenbaum ♦ 129k
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98
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Intersect exome region from whole genome gvcf
gatk genomicsdbimport written 22 days ago by MAPK • 1.5k
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1
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Rename sample names in g.vcf files fails [Error Segmentation fault (core dumped) ]
vcf gatk bcftools snp bash written 3 months ago by ekwame • 40
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GATK GenomicsDBImport intervals
gatk gvcf written 26 days ago by MAPK • 1.5k
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Best tool to merge .vcf files from different variant callers?
vcf gatk annotation snp variants written 10 weeks ago by j.lunger18 • 10 • updated 27 days ago by Biostar ♦♦ 20
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97
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GATK VariantFiltration multiple filters including genotype for multi-sample VCF
vcf gatk written 28 days ago by graeme.thorn • 50
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80
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GATK WDL scripts on remote server without docker installation
gatk wdl written 4 weeks ago by AR • 0
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110
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VCF to Fasta with out reference
vcf gatk written 4 weeks ago by the_cowa • 40
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111
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Alternative coding sequences with GATK
gene gatk snp written 5 weeks ago by AlBaars • 0
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92
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Mutect2 somatic hemizygote variant on chrX
gatk mutect2 chromosome-x hemizygosis somatic written 5 weeks ago by cocchi.e89 • 80
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109
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How should I extract mutated genes from a VCF file?
exome gatk wes written 5 weeks ago by jrleary • 120
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75
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Heterozygous individuals and FastaAlternateReferenceMarker
fasta gatk snp written 5 weeks ago by gabri.mochales • 30
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70
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Evaluating RMSMappingQuality profile to set threshold
variant calling gatk snp filtering written 5 weeks ago by serpalma.v • 40 • updated 5 weeks ago by Nicolas Rosewick ♦ 8.8k
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panel of normal files
gatk panel-of-normal hg38 mutect2 hg19 written 9 weeks ago by cocchi.e89 • 80 • updated 5 weeks ago by Biostar ♦♦ 20
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115
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GATK liftOver chain file for human_g1k_v37.fasta
genome gatk alignment sequencing written 5 weeks ago by brismiller • 40
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129
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Generating fasta from VCF with only the variant
vcf gatk alignment snp written 7 weeks ago by the_cowa • 40
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Where can I find GATK SNP calling VCF for NA12878 exome?
vcf gatk na12878 written 10 months ago by gerrybio2010 • 0 • updated 7 weeks ago by geocarvalho • 140
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88
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GATK finding rare variants
gatk written 7 weeks ago by Seigfried • 70
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97
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GATK mutect2 missing variant
gatk mutect2 mutation bed written 7 weeks ago by cocchi.e89 • 80
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185
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GATK BaseRecalibrator Step
gatk written 7 weeks ago by Seigfried • 70
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111
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gatk collectallelic counts error
gatk java written 7 weeks ago by Peter Chung • 120
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951
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Filtering phased alleles with GATK
linkage gatk exome variants phased written 3.6 years ago by petersam • 0 • updated 8 weeks ago by Biostar ♦♦ 20
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Split Vcf File Into Snps And Indels
vcf indel split snp gatk written 8.0 years ago by pablo.riesgo • 140 • updated 8 weeks ago by hsiaoyi0504 • 60
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Multisample VCF to FASTA
vcf fasta gatk written 8 weeks ago by gabri.mochales • 30 • updated 8 weeks ago by Kevin Blighe ♦ 61k
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