Showing: gatkreset
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Removing Duplicates before aligning
gatk dna-seq next-gen written 18 hours ago by newbinf0 • updated 10 hours ago by gb160
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101
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Why not simple Gaussian model instead of Gaussian mixture for VQSR?
vqsr gatk written 6 weeks ago by CY140 • updated 2 days ago by Biostar ♦♦ 20
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Size different between two uBam file which generate from the same Fastq.
gatk bam samtools written 8 days ago by weichi10 • updated 8 days ago by h.mon16k
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Read group information
gatk picard read group bwa written 11 days ago by bwczech0 • updated 11 days ago by WouterDeCoster30k
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GBS SNPs calling
fast-gbs gatk snp calling samtools gbs written 17 months ago by shinken12350 • updated 14 days ago by Arthur Melo0
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12 follow
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How to get sample names and genotype for SNP in multi-sample VCF file
gatk genotype snp written 5 months ago by hellbio320 • updated 18 days ago by Pierre Lindenbaum110k
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94
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Input for VariantsToBinaryPed
gatk plink written 28 days ago by archie50 • updated 28 days ago by zx87544.6k
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BQSR vs VQSR
gatk snp written 5 weeks ago by James Reeve10 • updated 4 weeks ago by finswimmer3.6k
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GATK SNPs calling multiple sample without any known SNPs database
gatk multiple-sample bsqr snp written 6 weeks ago by deepkumar198340 • updated 6 weeks ago by YaGalbi1.3k
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GATK HaolotypeCaller takes too much time for variant calling
haplotypecaller gatk long written 7 months ago by J.F.Jiang700 • updated 6 weeks ago by YaGalbi1.3k
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combineVariants error for merging two vcf files
gatk combinevariants snp written 3 months ago by GK161030 • updated 7 weeks ago by Biostar ♦♦ 20
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use gatk phased vcf as input file of HapCut2
hapcut2 gatk vcf phasing written 10 weeks ago by Peter Chung70 • updated 8 weeks ago by Ram15k
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146
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Calculate Depth with and without Soft-Clipping
gatk bam alignment sequencing written 9 weeks ago by ccnn0 • updated 9 weeks ago by Pierre Lindenbaum110k
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[ERROR] Malformed VCF: empty alleles are not permitted in VCF records
vcf gatk rna-seq written 2.4 years ago by umn_bist310 • updated 9 weeks ago by Biostar ♦♦ 20
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Log-odds based filtering and pairHMM alignment during local realignment
gatk mutect bayes written 3 months ago by CY140 • updated 9 weeks ago by Biostar ♦♦ 20
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Wrong genotype assignation in GATK?
vcf gatk genotype snp written 10 weeks ago by Rob90
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