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Tool: Varscan: Variant Detection In Massively Parallel Sequencing Data
indel varscan tool snp written 5.3 years ago by Istvan Albert ♦♦ 73k • updated 7 days ago by AcademicDialysis • 60
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140
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Localize the variant from the Crispr embryon editing paper
indel mybpc3 snp localize written 15 days ago by sacha • 780
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139
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How do I call somatic indels from a VCF file?
vcf indel mutation platypus cancer written 26 days ago by AcademicDialysis • 60
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154
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Inferring the zygosity of large indels (transposon variants) from bam paired-end mapping to reference and bed coordinate files
indel zygosity alignment samtools bam written 4 weeks ago by rimjhim.roy.ch • 50
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VCF Indel line structure: what is actually reported?
indel vcf calling variant snp written 4 months ago by Macspider • 1.2k • updated 8 weeks 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 9 weeks ago by reza • 140
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5 follow
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Extracting Specific Reads From Vcf File
vcf indel script file python written 5.1 years ago by Bnfoguy • 70 • updated 10 weeks ago by Begali • 0
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1
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495
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1
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Scalpel Error - INDELS
indel scalpel written 15 months ago by agata88 • 610 • updated 11 weeks ago by sydaileen • 0
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105
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breakseq2 non human data
indel structural variants bam written 11 weeks ago by guillaume.rbt • 300
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294
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5 follow
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How to extract reads with no INDEL?
indel samtools sam written 3 months ago by Jeason Rad • 30 • updated 3 months ago by dariober • 8.0k
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166
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Extract certain SNPs and indeld from a genotyped dataset.
indel snp rsid .raw data .bim file written 3 months ago by Mazza • 10
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1.3k
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1
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Searching For Deletion In A Low Number Of Reads
indel mitochondria tophat written 4.9 years ago by Assa Yeroslaviz • 1.1k • updated 3 months ago by Biostar ♦♦ 20
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1
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226
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1
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Mismatch and Indel statistics from BAM/SAM file
indel bam sam written 3 months ago by sbdk82 • 30 • updated 3 months ago by Brian Bushnell ♦ 13k
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Depth of coverage in Bam file does not match depth in VCF file
indel variant calling pindel coverage igv written 3 months ago by jsneaththompson • 0 • updated 3 months ago by tangming2005 • 2.1k
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251
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VCF file PL values for more than 1 alternatives allele
indel vcf snp written 4 months ago by bharata1803 • 230 • updated 4 months ago by Santosh Anand • 2.9k
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182
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Variant consensus sequence generator
indel bcftools snp written 4 months ago by bharata1803 • 230
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535
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8 follow
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extract SNP, variants
indel variant calling snp rna-seq mapping written 4 months ago by divya • 10 • updated 4 months ago by AB • 60
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186
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is DANN capable of scoring insertion and deletion?
indel genome annotation snp non-coding written 5 months ago by fetus0000 • 20 • updated 4 months ago by Biostar ♦♦ 20
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292
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6 follow
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somatic variant calling with no germline sample
indel snp somatic mutation written 5 months ago by Bogdan • 260 • updated 5 months ago by d-cameron • 780
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319
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Merge SNP & INDEL vcf files
vcf indel snp written 5 months ago by mplace • 10
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In GATK, SNPs and INDELs are called separately or together?
indel gatk variant snp written 5 months ago by Chen • 510 • updated 5 months ago by WouterDeCoster ♦ 20k
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Alternate Sources Of Reference Indel Vcfs Outside Of Dbsnp And 1000 Genomes Website
genome vcf dbsnp indel written 3.5 years ago by youngcsong • 100 • updated 6 months ago by Biostar ♦♦ 20
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236
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1
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INDEL left alignment in bam and vcf
indel aligner bowtie bwa blasr written 6 months ago by mark.rose • 10 • updated 6 months ago by Brian Bushnell ♦ 13k
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354
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1
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Variant coordinates in dbSNP VCF
vcf indel coordinates dbsnp rspos written 6 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 4.3 years ago by bari1 • 40 • updated 6 months ago by Biostar ♦♦ 20
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How to extract information from a VCF file
indel vcf galaxy snp mnp written 8 months ago by ron • 20 • updated 8 months ago by Macspider • 1.2k
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Multi-Sample Indel Realignment Using Gatk
indel gatk written 4.7 years ago by Sebastian • 10 • updated 8 months ago by Biostar ♦♦ 20
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2
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471
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5 follow
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INDEL detection tool recommendation
indel cnv written 8 months ago by nayshool • 20
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331
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local de novo assembly and split-read alignment at known sites and output bams?
indel snv written 9 months ago by lyz10302012 • 260 • updated 9 months ago by Devon Ryan ♦ 70k
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IndelRealigner and RealignerTargetCreator for amplicon sequencing
indel amplicon-seq ngs written 9 months ago by kulvait • 200 • updated 9 months ago by WouterDeCoster ♦ 20k
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