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<prev • 53 results • page 1 of 2 • next >
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Using freebayes to call variants
next-gen freebayes sequencing written 6 days ago by zhou_1228 • 0 • updated 6 days ago by finswimmer ♦ 7.7k
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119
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Freebayes outputs only one individual out of many
freebayes written 25 days ago by Fedster • 20
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SNP calling from pool sequencing with freebayes
ngs freebayes snp written 3.4 years ago by marcoabbestia • 0 • updated 11 weeks ago by Biostar ♦♦ 20
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freebayes: changing min-coverage setting and still getting same size file output
freebayes min-coverage written 2.8 years ago by laurenvw • 20 • updated 12 weeks ago by RamRS ♦ 19k
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How to know if a variant is sequencing or mapping artifact?
vcf variant freebayes written 5 months ago by kspata • 40 • updated 5 months ago by finswimmer ♦ 7.7k
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Freebayes command stopped due to lack of space
snp calling freebayes forum written 5 months ago by amcheroo • 0 • updated 5 months ago by finswimmer ♦ 7.7k
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Find variants supported by at least 20 reads freebayes
variant calling freebayes written 5 months ago by kspata • 40 • updated 5 months ago by finswimmer ♦ 7.7k
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What do the freebayes parameters --pooled-continuous/--pooled-discrete mean?
variant-calling next-gen freebayes snp written 6 months ago by markd • 20
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Getting Haplotypes from a VCF file
vcf haplotypes freebayes written 9 months ago by gkuffel22 • 50 • updated 8 months ago by Biostar ♦♦ 20
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How to shorten runtimes of freebayes on very deep long reads with a smattering of largish indels
bam freebayes written 8 months ago by rleach • 90
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Variant Calls: Freebayes vs GATK
.vcf gatk freebayes written 8 months ago by oars • 150 • updated 8 months ago by vdauwera • 830
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freebayes haplotype calling (phased variants)
freebayes haplotype phase variant phased written 2.7 years ago by mark.rose • 30 • updated 9 months ago by gkuffel22 • 50
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How unphased VCF is converted into ped file?
vcf ddrad phaseing freebayes ped written 10 months ago by jingjin2203 • 0 • updated 10 months ago by Kevin Blighe ♦ 33k
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how to genotype given SNP alleles from NGS data using freebayes
ngs freebayes genotype written 14 months ago by J.F.Jiang • 720 • updated 11 months ago by ines.sanchezdonoso • 0
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Variant caller comparison for non-human data (highly varied populations)
variant calling gatk freebayes platypus genotyping written 13 months ago by hermathena • 40
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Converting MNP to SNP
vcf freebayes snp written 13 months ago by finswimmer ♦ 7.7k
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freebayes VCF output (FREQ header)
vcf freebayes written 14 months ago by Thomas • 90
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How to filter SNPs after Freebayes, if at all, in a fungal haploid genome alignment?
freebayes snp filtering written 14 months ago by Lina F • 150
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sample order of the freebayes vcf output
vcf wes freebayes written 16 months ago by Ming Tang • 2.4k
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Freebayes to output BAM after haplotype assembly
freebayes written 17 months ago by cvniru • 0 • updated 16 months ago by Biostar ♦♦ 20
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What makes low frequency variants callers good at what they do?
variant calling lofreq freebayes somatic mutation written 17 months ago by CY • 270
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Calling SNPs with samtools: how to specify how many supporting observations are required?
variant calling samtools snps freebayes written 19 months ago by Lina F • 150 • updated 19 months ago by Brian Bushnell ♦ 16k
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Variant callers reporting different read depth on same alignment
variant calling gatk freebayes variant annotation written 20 months ago by Lauren • 20 • updated 20 months ago by Pierre Lindenbaum ♦ 115k
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calling phased variants
phase variants freebayes problem platypus written 2.7 years ago by mark.rose • 30 • updated 20 months ago by arezansoff • 20
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Is it necessery to perform GATK-BQSR before performing variant calling using freebayes.
gatk bqsr freebayes written 20 months ago by sktbanerjee1 • 30 • updated 20 months ago by finswimmer ♦ 7.7k
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calculating genotype quality from genotype likelihood
genotype likelihood genotype quality freebayes written 21 months ago by Ana • 120 • updated 21 months ago by youcai • 40
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Detecting Variants near repeats
vcf repeats bam freebayes written 4.6 years ago by Adrian Pelin • 2.2k • updated 21 months ago by Macspider • 2.6k
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How to fix FreeBayes error "unable to find FASTA index entry"
galaxy freebayes written 21 months ago by genome21 • 0 • updated 21 months ago by shenwei356 ♦ 4.3k
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CombineGVCFs + GenotypeGVCFs for Freebayes gVCF files?
freebayes gvcf written 21 months ago by William • 4.3k
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complex indel precludes detection of overlapping SNPs
variant-calling pooled sample freebayes written 21 months ago by harold.smith.tarheel • 4.2k
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