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205
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Requesting Insights on Potential Complex Structural Event Indicated by IGV
Manta IGV variant translocation structural
3 months ago by pragnapcu ▴ 10
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374
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Comment: Comment: Error Reading gencode.v38.genes.json.gz File in SvAnna CLI Tool
5 months ago by pragnapcu ▴ 10
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2
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374
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Error Reading gencode.v38.genes.json.gz File in SvAnna CLI Tool
Structural-Variant SVAnna
5 months ago by pragnapcu ▴ 10
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1.4k
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Answer: Answer: HaplotypeCaller VCF depth is greater than the number of reads in bam
15 months ago by pragnapcu ▴ 10
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2
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1.1k
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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
15 months ago by pragnapcu ▴ 10
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1.1k
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Comment: Comment: Why the number of reads in bam generated by GATK haplotype caller are more than
15 months ago by pragnapcu ▴ 10
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1
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730
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How do I integrate GRCh38 CADD v1.6 offline with ANNOVAR?
CADD v1.6 ANNOVAR
updated 15 months ago by ★ 2.3k • written 15 months ago by ▴ 10
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1.2k
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Answer: Answer: How to detect de novo variants with trio-data
21 months ago by pragnapcu ▴ 10
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0
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743
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Comment: Comment: Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplicatio
21 months ago by pragnapcu ▴ 10
0
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0
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790
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Comment: Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
21 months ago by pragnapcu ▴ 10
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2
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790
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Comment: Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
21 months ago by pragnapcu ▴ 10
2
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5
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790
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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
21 months ago by pragnapcu ▴ 10
0
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0
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743
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Comment: Comment: Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplicatio
21 months ago by pragnapcu ▴ 10
0
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4
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743
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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
21 months ago by pragnapcu ▴ 10
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695
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Comment: Comment: How to Visualize unmapped bam generated from GATK FastqToSam?
21 months ago by pragnapcu ▴ 10
2
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2
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695
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How to Visualize unmapped bam generated from GATK FastqToSam?
FastqToSam UnmappedBam GATK
21 months ago by pragnapcu ▴ 10
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0
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557
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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
21 months ago by pragnapcu ▴ 10
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1
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2.4k
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Comment: Comment: gCNVKERNEL Error while using GATK 4.1
22 months ago by pragnapcu ▴ 10
0
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1
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1.2k
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Comment: Comment: Why different read depth on IGV and in VCF for a variant
23 months ago by pragnapcu ▴ 10
3
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3
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1.2k
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Why different read depth on IGV and in VCF for a variant
depth GATK read haplotypecaller IGV
updated 23 months ago by 9.0k • written 23 months ago by ▴ 10
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1
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564
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How can I identify common variants in siblings with same disorder after joint calling?
joint calling variants common Shared
updated 23 months ago by 163k • written 23 months ago by ▴ 10
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552
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How do I get single multianno.txt file for multiple samples from Annovar?
joint table_annovar.pl GATK Annovar typing
23 months ago by pragnapcu ▴ 10
0
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1
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684
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How to select dataset from 1000 genome
1000genomes vcf
updated 16 months ago by 44k • written 3.0 years ago by ▴ 10
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2
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1.4k
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Comment: Comment: Where do I get a WES dataset of size <1GB
3.0 years ago by pragnapcu ▴ 10
3
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5
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1.4k
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Where do I get a WES dataset of size <1GB
WGS WES genomics
updated 3.0 years ago by ★ 2.9k • written 3.0 years ago by ▴ 10
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