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Answer: Answer: HaplotypeCaller VCF depth is greater than the number of reads in bam
5 weeks ago by pragnapcu • 0
0
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2
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764
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Why the number of reads in bam generated by GATK haplotype caller are more than the bam generated after GATK baserecalibrator
BaseRecalibrator BAM GATK READ HaplotypeCaller
5 weeks ago by pragnapcu • 0
0
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0
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764
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Comment: Comment: Why the number of reads in bam generated by GATK haplotype caller are more than
5 weeks ago by pragnapcu • 0
0
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1
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223
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How do I integrate GRCh38 CADD v1.6 offline with ANNOVAR?
CADD v1.6 ANNOVAR
updated 7 weeks ago by ★ 1.6k • written 7 weeks ago by • 0
0
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1
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582
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Answer: Answer: How to detect de novo variants with trio-data
8 months ago by pragnapcu • 0
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393
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Comment: Comment: Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplicatio
8 months ago by pragnapcu • 0
0
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0
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397
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Comment: Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
8 months ago by pragnapcu • 0
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2
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397
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Comment: Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
8 months ago by pragnapcu • 0
2
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5
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397
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How Haplotypecaller could call a 17-bp duplication that is not seen in sorted bam (in IGV)?
BaseRecalibrator IGV GATK HaplotypeCaller frameshiftinsertion
8 months ago by pragnapcu • 0
0
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0
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393
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Comment: Comment: Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplicatio
8 months ago by pragnapcu • 0
0
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4
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393
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Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplication?
BAM IGV GATK duplication
8 months ago by pragnapcu • 0
0
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0
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386
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Comment: Comment: How to Visualize unmapped bam generated from GATK FastqToSam?
8 months ago by pragnapcu • 0
2
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2
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386
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How to Visualize unmapped bam generated from GATK FastqToSam?
FastqToSam UnmappedBam GATK
8 months ago by pragnapcu • 0
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0
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402
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How can I give dbscsv11.txt.gz and dbscsv11.txt.gz.tbi to tableannovar --protocol instead of dbscsv11.txt and dbscsv11.txt.tbi?
dbscsnv GATK Annovar
8 months ago by pragnapcu • 0
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1
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1.9k
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Comment: Comment: gCNVKERNEL Error while using GATK 4.1
8 months ago by pragnapcu • 0
0
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1
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665
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Comment: Comment: Why different read depth on IGV and in VCF for a variant
10 months ago by pragnapcu • 0
2
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3
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665
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Why different read depth on IGV and in VCF for a variant
depth GATK read haplotypecaller IGV
updated 9 months ago by 8.7k • written 10 months ago by • 0
0
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1
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337
views
How can I identify common variants in siblings with same disorder after joint calling?
joint calling variants common Shared
updated 10 months ago by 155k • written 10 months ago by • 0
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0
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205
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How do I get single multianno.txt file for multiple samples from Annovar?
joint table_annovar.pl GATK Annovar typing
10 months ago by pragnapcu • 0
0
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1
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486
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How to select dataset from 1000 genome
1000genomes vcf
updated 11 weeks ago by 39k • written 22 months ago by • 0
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2
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1.0k
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Comment: Comment: Where do I get a WES dataset of size <1GB
22 months ago by pragnapcu • 0
3
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5
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1.0k
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Where do I get a WES dataset of size <1GB
WGS WES genomics
updated 22 months ago by ★ 2.9k • written 22 months ago by • 0
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