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Requesting Insights on Potential Complex Structural Event Indicated by IGV
Manta IGV variant translocation structural
updated 10 months ago by ▴ 30 • written 18 months ago by ▴ 10
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743
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Comment: Comment: Error Reading gencode.v38.genes.json.gz File in SvAnna CLI Tool
19 months ago by pragnapcu ▴ 10
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2
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743
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Error Reading gencode.v38.genes.json.gz File in SvAnna CLI Tool
Structural-Variant SVAnna
19 months ago by pragnapcu ▴ 10
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2.1k
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Answer: Answer: HaplotypeCaller VCF depth is greater than the number of reads in bam
2.4 years ago by pragnapcu ▴ 10
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2
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1.5k
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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
2.4 years ago by pragnapcu ▴ 10
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0
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1.5k
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Comment: Comment: Why the number of reads in bam generated by GATK haplotype caller are more than
2.4 years ago by pragnapcu ▴ 10
0
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1
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1.1k
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How do I integrate GRCh38 CADD v1.6 offline with ANNOVAR?
CADD v1.6 ANNOVAR
updated 2.5 years ago by ★ 2.5k • written 2.5 years ago by ▴ 10
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1
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1.9k
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Answer: Answer: How to detect de novo variants with trio-data
3.0 years ago by pragnapcu ▴ 10
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0
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1.3k
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Comment: Comment: Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplicatio
3.0 years ago by pragnapcu ▴ 10
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1.2k
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Comment: Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
3.0 years ago by pragnapcu ▴ 10
0
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2
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1.2k
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Comment: Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
3.0 years ago by pragnapcu ▴ 10
2
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5
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1.2k
views
How Haplotypecaller could call a 17-bp duplication that is not seen in sorted bam (in IGV)?
BaseRecalibrator IGV GATK HaplotypeCaller frameshiftinsertion
3.0 years ago by pragnapcu ▴ 10
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0
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1.3k
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Comment: Comment: Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplicatio
3.0 years ago by pragnapcu ▴ 10
0
votes
4
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1.3k
views
Why do I see sudden rise in TOTAL COUNT of my bam. I dont think it is duplication?
BAM IGV GATK duplication
3.0 years ago by pragnapcu ▴ 10
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0
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1.1k
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Comment: Comment: How to Visualize unmapped bam generated from GATK FastqToSam?
3.0 years ago by pragnapcu ▴ 10
2
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2
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1.1k
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How to Visualize unmapped bam generated from GATK FastqToSam?
FastqToSam UnmappedBam GATK
3.0 years ago by pragnapcu ▴ 10
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0
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742
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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
3.0 years ago by pragnapcu ▴ 10
0
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1
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2.9k
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Comment: Comment: gCNVKERNEL Error while using GATK 4.1
3.1 years ago by pragnapcu ▴ 10
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1
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2.0k
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Comment: Comment: Why different read depth on IGV and in VCF for a variant
3.2 years ago by pragnapcu ▴ 10
3
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3
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2.0k
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Why different read depth on IGV and in VCF for a variant
depth GATK read haplotypecaller IGV
updated 3.2 years ago by 9.0k • written 3.2 years ago by ▴ 10
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1
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872
views
How can I identify common variants in siblings with same disorder after joint calling?
joint calling variants common Shared
updated 3.2 years ago by 166k • written 3.2 years ago by ▴ 10
1
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0
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886
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How do I get single multianno.txt file for multiple samples from Annovar?
joint table_annovar.pl GATK Annovar typing
3.2 years ago by pragnapcu ▴ 10
0
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1
reply
959
views
How to select dataset from 1000 genome
1000genomes vcf
updated 2.6 years ago by 45k • written 4.2 years ago by ▴ 10
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2
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2.0k
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Comment: Comment: Where do I get a WES dataset of size <1GB
4.2 years ago by pragnapcu ▴ 10
3
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5
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2.0k
views
Where do I get a WES dataset of size <1GB
WGS WES genomics
updated 4.2 years ago by ★ 3.0k • written 4.2 years ago by ▴ 10
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