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VCF Indel line structure: what is actually reported?
indel vcf calling variant snp written 10 weeks ago by Macspider • 1.2k • updated 1 day ago by Biostar ♦♦ 20
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Functional annotation of SNPs and genes containing nonsynonymous SNPs
gene indel next-gen ns snps snp written 7 days ago by reza • 130
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Extracting Specific Reads From Vcf File
vcf indel script file python written 4.9 years ago by Bnfoguy • 70 • updated 17 days ago by Begali • 0
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433
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Scalpel Error - INDELS
indel scalpel written 13 months ago by agata88 • 580 • updated 18 days ago by sydaileen • 0
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breakseq2 non human data
indel structural variants bam written 25 days ago by guillaume.rbt • 280
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How to extract reads with no INDEL?
indel samtools sam written 5 weeks ago by Jeason Rad • 30 • updated 5 weeks ago by dariober • 7.8k
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Extract certain SNPs and indeld from a genotyped dataset.
indel snp rsid .raw data .bim file written 5 weeks ago by Mazza • 10
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Searching For Deletion In A Low Number Of Reads
indel mitochondria tophat written 4.8 years ago by Assa Yeroslaviz • 1.1k • updated 5 weeks ago by Biostar ♦♦ 20
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131
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Mismatch and Indel statistics from BAM/SAM file
indel bam sam written 6 weeks ago by sbdk82 • 30 • updated 6 weeks ago by Brian Bushnell ♦ 12k
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Depth of coverage in Bam file does not match depth in VCF file
indel variant calling pindel coverage igv written 6 weeks ago by jsneaththompson • 0 • updated 6 weeks ago by tangming2005 • 2.1k
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VCF file PL values for more than 1 alternatives allele
indel vcf snp written 10 weeks ago by bharata1803 • 220 • updated 10 weeks ago by Santosh Anand • 2.3k
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147
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Variant consensus sequence generator
indel bcftools snp written 10 weeks ago by bharata1803 • 220
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8 follow
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extract SNP, variants
indel variant calling snp rna-seq mapping written 10 weeks ago by divya.srivastava33 • 10 • updated 10 weeks ago by AB • 60
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is DANN capable of scoring insertion and deletion?
indel genome annotation snp non-coding written 3 months ago by fetus0000 • 20 • updated 3 months ago by Biostar ♦♦ 20
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somatic variant calling with no germline sample
indel snp somatic mutation written 3 months ago by Bogdan • 250 • updated 3 months ago by d-cameron • 740
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215
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Merge SNP & INDEL vcf files
vcf indel snp written 3 months ago by mplace • 10
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204
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In GATK, SNPs and INDELs are called separately or together?
indel gatk variant snp written 3 months ago by Chen • 480 • updated 3 months ago by WouterDeCoster ♦ 19k
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Alternate Sources Of Reference Indel Vcfs Outside Of Dbsnp And 1000 Genomes Website
genome vcf dbsnp indel written 3.3 years ago by youngcsong • 90 • updated 4 months ago by Biostar ♦♦ 20
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INDEL left alignment in bam and vcf
indel aligner bowtie bwa blasr written 4 months ago by mark.rose • 10 • updated 4 months ago by Brian Bushnell ♦ 12k
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Variant coordinates in dbSNP VCF
vcf indel coordinates dbsnp rspos written 4 months ago by wjastle • 0
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What Are The Next Steps For Processing Indels From Gatk
indel gatk depth-of-coverage filtering written 4.1 years ago by bari1 • 40 • updated 4 months ago by Biostar ♦♦ 20
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How to extract information from a VCF file
indel vcf galaxy snp mnp written 6 months ago by ron • 20 • updated 6 months ago by Macspider • 1.2k
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Multi-Sample Indel Realignment Using Gatk
indel gatk written 4.6 years ago by Sebastian • 10 • updated 6 months ago by Biostar ♦♦ 20
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5 follow
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INDEL detection tool recommendation
indel cnv written 6 months ago by nayshool • 20
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local de novo assembly and split-read alignment at known sites and output bams?
indel snv written 7 months ago by lyz10302012 • 260 • updated 7 months ago by Devon Ryan ♦ 68k
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IndelRealigner and RealignerTargetCreator for amplicon sequencing
indel amplicon-seq ngs written 8 months ago by kulvait • 160 • updated 8 months ago by WouterDeCoster ♦ 19k
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generate consensus sequence from unphased heterozygous calls
indel heterozygous unphased consensus sequence written 9 months ago by atul_shah1 • 0 • updated 8 months ago by Biostar ♦♦ 20
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539
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indel preprocessing prior to bam-readcount
indel varscan fpfilter.pl bam-readcount written 9 months ago by Jokhe • 40 • updated 8 months ago by m.b • 0
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gold standard for human genome genotyping
indel 1k human genome dataset genotyping written 12 months ago by watermelon1037 • 0 • updated 8 months ago by Biostar ♦♦ 20
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gatk base recalibration results for 1000 genomes
indel 1000 genomes snp gatk written 9 months ago by cmo • 30 • updated 8 months ago by Biostar ♦♦ 20
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