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<prev • 216 results • page 1 of 8 • next >
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Why invariant blocks in GATK consistently have very low quality scores (but not variant sites)
variant calling gatk snp written 16 days ago by yixianshuiesuan • 0
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GATK multi sample variant calling
variant calling gatk snp written 23 days ago by cetin.m • 30
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130
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VarScan.v2.4.3 generating incomplete or partial VCF file
variant calling exomeseq snp varscan written 29 days ago by Sandeep • 250 • updated 29 days ago by 2nelly • 170
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Effect size in power analysis when dealing with Poisson based variant caller
variant calling written 5 weeks ago by CY • 370 • updated 4 weeks 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 5 weeks ago by Sandeep • 250 • updated 5 weeks ago by Kevin Blighe ♦ 47k
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Difference between mpileup and HaplotypeCaller -ERC BP_RESOLUTION
variant calling haplotypecaller mpileup written 5 weeks ago by CY • 370
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Samtools mplileup detects wrong INDEL positions
variant calling samtools count nuceotides mpileup written 5 weeks ago by vit.filippo • 40 • updated 5 weeks ago by finswimmer ♦ 12k
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Filter out low coverage and minor alleles of a frequency above 40%.
vcf variant calling freebayes hiv written 7 weeks ago by pennakiza • 20 • updated 6 weeks ago by bari.ballew • 180
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Why am I getting fewer variants with more samples?
variant calling gatk snp written 9 weeks ago by Ace • 60
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How to interpret results from GATK ApplyVQSR
variant calling gatk applyvqsr filtering written 9 weeks ago by kittys • 0 • updated 9 weeks ago by Nicolas Rosewick ♦ 8.0k
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VarScan warning and exit after Invalid format for pileup at line 1
software error variant calling wes written 4 months ago by n.tear • 0 • updated 11 weeks ago by Biostar ♦♦ 20
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Applying hard filters for variants
variant calling gatk snps variants written 3.8 years ago by bioinforesearchquestions • 250 • updated 11 weeks ago by Biostar ♦♦ 20
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Forum: How can unique molecular identifiers (UMIs) help to reduce quantitative biases?
variant calling ngs unique molecular identifier forum written 12 weeks ago by David Langenberger ♦ 9.0k
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Tool: Using NGS replicates for variant calling
variant calling ngs sequencing tool somatic mutation written 5 months ago by swkim • 20 • updated 12 weeks ago by stephannie.baker8 • 0
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Test Freebayes on sample files
variant calling freebayes sequencing written 3 months ago by Bella_p • 50
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Creating a cell by SNP matrix
variant calling bcftools snp genotyping written 15 months ago by dominicdhall • 40 • updated 3 months ago by niklas.lang • 0
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Getting only Indels and no SNPs after variant calling variant calling using HaplotypeCaller
variant calling gatk bam rna-seq snp written 3 months ago by Susmita Mandal • 50
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GATK HC mis-reading chromosomes
variant calling software error bam files snp written 3 months ago by Ace • 60
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Identify homopolymer stretches in a given genome
variant calling indel homopolymers snp written 22 months ago by ATpoint ♦ 21k
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Tool: Arriba: Fast and accurate gene fusion detection from RNA-Seq data
variant calling tool cancer fusion rna-seq gene written 18 months ago by uhrigs • 80
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GATK4 Mutect2 variants IDs not shown
gatk4 variant calling mutect2 written 5 months ago by dganiewich • 80
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Bcftools Call method not detecting single nucleotide deletions?
variant calling bcftools samtools variant written 4 months ago by kennyworkman • 0
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Variant calls for 1% mix NA12878 with NA12877
variant calling written 4 months ago by ngs_engineer • 0
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XADL field in VCF from Variation Graphs
variant calling written 5 months ago by ziaursani • 0
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% of I averaged across each A sequenced
variant calling rna-seq written 5 months ago by cwilson • 0 • updated 5 months ago by zx8754 ♦ 8.0k
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Strelka2 and single tumour sample
variant calling written 5 months ago by sbilobram • 10
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CYP2D6 Variant Calling
variant calling written 6 months ago by twesigomwedavid • 0
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Genomics (DNA) Pipeline - Example
variant calling annotation alignment python written 6 months ago by caspase8mach • 0
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Difference between Private SNPs and Singleton SNPs
variant calling gatk snps snp population genetics written 6 months ago by prasundutta87 • 340
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Does it make sense to repeat the assembly step in variant calling?
variant calling written 6 months ago by ajuiwl • 30 • updated 6 months ago by Devon Ryan ♦ 91k
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