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<prev • 237 results • page 1 of 8 • next >
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Are there any issues with using sample reads coming from different technologies and having different depths to do joint variant calling (gatk)?
variant calling gatk hiseq snp novaseq written 1 day ago by serpalma.v • 30 • updated 1 day ago by bari.ballew • 210
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VCF quality indicators
variant calling next-gen wes snp normal-tumor written 2 days ago by Martina • 20
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Which of the 4 SureSelect Agilent BED files to use with GATK haplotype caller?
variant calling gatk sureselect written 2 days ago by curious • 210
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How to determine which bam/sam lines correspond to called structural variant using Freebayes
variant calling freebayes snp written 3 days ago by mdriskil • 10
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find variants compared to sequenced reference in coding sequences
variant calling written 7 days ago by nibhelim • 0
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News: Live webinar (Feb 12 at 12PM Eastern): variant calling for bench scientists
variant calling tutorial wes wgs news software tools written 9 days ago by Basepair • 0 • updated 9 days ago by h.mon ♦ 29k
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Split BAM file from paired end read into forward and reverse strand w.r.t reference genome
variant calling ngs samtools rna-seq snp written 14 days ago by Susmita Mandal • 60 • updated 14 days ago by ATpoint ♦ 29k
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Tools and/or methods to detect allelic mapping bias.
variant calling ngs rna-seq snp alelle specific written 18 days ago by Susmita Mandal • 60
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What is the difference between mpileup samtools and bcftools?
variant calling bcftools samtools mpileup snp written 25 days ago by beausoleilmo • 300 • updated 22 days ago by jkbonfield • 330
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GATK's NuMT detection algorithm?
variant calling gatk mitochondria written 29 days ago by a.j.wilson0000 • 10
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Suggested pipeline to perform variant calling for cancer exome sequencing samples of PDX models
variant calling pdx wes liquid biopsy written 4 weeks ago by svlachavas • 640
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Estimate tumor purity for liquid cancer biopsy samples of whole exome sequencing data
variant calling liquid biopsy wes tumor purity written 9 weeks ago by svlachavas • 640 • updated 5 weeks ago by amjad • 80
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Computational resources for WGS variant calling
variant calling wgs bwakit openstack gatk written 11 weeks ago by alesssia • 560 • updated 5 weeks ago by Jeremy Leipzig ♦ 19k
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Tool: ClinCNV: CNV detection from short reads
cna variant calling tool cnv written 4 months ago by German.M.Demidov • 1.5k
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Does it make sense to repeat the assembly step in variant calling?
variant calling written 12 months ago by ajuiwl • 30 • updated 8 weeks ago by Biostar ♦♦ 20
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Variant calling by using samtools and bcftools
variant calling samtools bcftools written 13 months ago by hasani.iut6 • 40 • updated 9 weeks ago by Lakshman Teja • 40
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How to use ExAC/gnomAD without chrN_random?
variant calling exac snp sequencing written 10 weeks ago by dodausp • 130
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Job: Bioinformatics Analyst at University of Minnesota
variant calling bioinformatics job rna-seq written 10 weeks ago by chenzler • 0
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147
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Hard filtering vcf files
genome variant calling hard filtering snp gatk written 10 weeks ago by kmkdesilva • 80
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How to effectively use GATK haplotype caller with -L breaking up BAM files
variant calling gatk written 3 months ago by mgdesaix • 10 • updated 3 months ago by rbagnall • 1.5k
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soft-clipping during alignment and variant calling query
variant calling bwa-mem alignment gatk written 4 months ago by prasundutta87 • 360 • updated 3 months ago by Biostar ♦♦ 20
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Can someone explain what F1R2 and F2R1 counts mean?
variant calling f2r1 f1r2 mutect2 written 4 months ago by nickeener • 20
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Difference between variant calling and genotyping
variant calling genotyping written 5 months ago by Floydian_slip • 130 • updated 5 months ago by Charles Warden ♦ 7.6k
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VarDict Amplicon-Aware Calling with barcoded seq data
variant calling next-gen molecular barcode written 2.2 years ago by jsneaththompson • 80 • updated 6 months ago by Biostar ♦♦ 20
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Why invariant blocks in GATK consistently have very low quality scores (but not variant sites)
variant calling gatk snp written 6 months ago by yixianshuiesuan • 0
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GATK multi sample variant calling
variant calling gatk snp written 6 months ago by cetin.m • 40
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269
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VarScan.v2.4.3 generating incomplete or partial VCF file
variant calling exomeseq snp varscan written 7 months ago by Sandeep • 250 • updated 7 months ago by 2nelly • 170
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199
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Effect size in power analysis when dealing with Poisson based variant caller
variant calling written 7 months ago by CY • 460 • updated 7 months ago by markus.riester • 480
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Are there any tools that can extract somatic variants from matched normal tumor vcf files?
variant calling ngs dna-seq written 7 months ago by Sandeep • 250 • updated 7 months ago by Kevin Blighe ♦ 54k
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Difference between mpileup and HaplotypeCaller -ERC BP_RESOLUTION
variant calling haplotypecaller mpileup written 7 months ago by CY • 460
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