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Showing: freebayes • reset
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<prev • 60 results • page 1 of 2 • next >
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How to subset bamfile based on chromosome IDs
bam freebayes subset written 7 days ago by mernster • 0 • updated 7 days ago by ATpoint ♦ 24k
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155
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1
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Freebayes haplotype calling
variantcall haplotype freebayes snp written 12 weeks ago by k.itokawa • 0 • updated 11 weeks ago by colindaven • 1.8k
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Filter out low coverage and minor alleles of a frequency above 40%.
vcf variant calling freebayes hiv written 3 months ago by pennakiza • 20 • updated 3 months ago by bari.ballew • 190
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129
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Test Freebayes on sample files
variant calling freebayes sequencing written 5 months ago by Bella_p • 50
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202
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Variant discrepancy between technical replicates
alignment freebayes written 5 months ago by kspata • 60 • updated 5 months ago by geek_y ♦ 9.9k
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843
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how to run freebayes in multi-thread
vcf multi-thread freebayes written 8 months ago by marongiu.luigi • 380 • updated 8 months ago by RamRS ♦ 24k
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Consensus VCF file from several variant callers
vcf variant calling freebayes gatk written 10 months ago by ajuiwl • 30 • updated 10 months ago by Pierre Lindenbaum ♦ 123k
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Using freebayes to call variants
next-gen freebayes sequencing written 10 months ago by zhou_1228 • 0 • updated 10 months ago by finswimmer ♦ 12k
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574
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Freebayes outputs only one individual out of many
freebayes written 11 months ago by Fedster • 30
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1
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SNP calling from pool sequencing with freebayes
ngs freebayes snp written 4.3 years ago by marcoabbestia • 0 • updated 13 months ago by Biostar ♦♦ 20
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freebayes: changing min-coverage setting and still getting same size file output
freebayes min-coverage written 3.6 years ago by laurenvw • 20 • updated 13 months ago by RamRS ♦ 24k
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679
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How to know if a variant is sequencing or mapping artifact?
vcf variant freebayes written 16 months ago by kspata • 60 • updated 16 months ago by finswimmer ♦ 12k
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Freebayes command stopped due to lack of space
snp calling freebayes forum written 16 months ago by amcheroo • 0 • updated 16 months ago by finswimmer ♦ 12k
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488
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Find variants supported by at least 20 reads freebayes
variant calling freebayes written 16 months ago by kspata • 60 • updated 16 months ago by finswimmer ♦ 12k
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What do the freebayes parameters --pooled-continuous/--pooled-discrete mean?
variant-calling next-gen freebayes snp written 16 months ago by markd • 20
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5 follow
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Getting Haplotypes from a VCF file
vcf haplotypes freebayes written 20 months ago by gkuffel22 • 70 • updated 18 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 18 months ago by rleach • 120
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Variant Calls: Freebayes vs GATK
.vcf gatk freebayes written 19 months ago by oars • 160 • updated 18 months ago by vdauwera • 960
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freebayes haplotype calling (phased variants)
freebayes haplotype phase variant phased written 3.6 years ago by mark.rose • 30 • updated 20 months ago by gkuffel22 • 70
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How unphased VCF is converted into ped file?
vcf ddrad phaseing freebayes ped written 20 months ago by jingjin2203 • 40 • updated 20 months ago by Kevin Blighe ♦ 49k
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how to genotype given SNP alleles from NGS data using freebayes
ngs freebayes genotype written 2.1 years ago by J.F.Jiang • 760 • updated 22 months ago by ines.sanchezdonoso • 0
3
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Variant caller comparison for non-human data (highly varied populations)
variant calling gatk freebayes platypus genotyping written 23 months ago by hermathena • 40
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Converting MNP to SNP
vcf freebayes snp written 24 months ago by finswimmer ♦ 12k
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freebayes VCF output (FREQ header)
vcf freebayes written 2.0 years ago by Thomas Bradley • 90
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How to filter SNPs after Freebayes, if at all, in a fungal haploid genome alignment?
freebayes snp filtering written 2.1 years ago by Lina F • 160
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sample order of the freebayes vcf output
vcf wes freebayes written 2.2 years ago by Ming Tang • 2.5k
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Freebayes to output BAM after haplotype assembly
freebayes written 2.3 years ago by cvniru • 0 • updated 2.2 years ago by Biostar ♦♦ 20
3
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What makes low frequency variants callers good at what they do?
variant calling lofreq freebayes somatic mutation written 2.3 years ago by CY • 410
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Calling SNPs with samtools: how to specify how many supporting observations are required?
variant calling samtools snps freebayes written 2.5 years ago by Lina F • 160 • updated 2.5 years 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 2.5 years ago by Lauren • 50 • updated 2.5 years ago by Pierre Lindenbaum ♦ 123k
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