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0
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replies
921
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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
votes
2
replies
764
views
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
votes
0
replies
764
views
Comment:
Comment: Why the number of reads in bam generated by GATK haplotype caller are more than
5 weeks ago by
pragnapcu
• 0
0
votes
1
reply
223
views
How do I integrate GRCh38 CADD v1.6 offline with ANNOVAR?
CADD
v1.6
ANNOVAR
updated 7 weeks ago by
barslmn
★ 1.6k • written 7 weeks ago by
pragnapcu
• 0
0
votes
1
reply
582
views
Answer:
Answer: How to detect de novo variants with trio-data
8 months ago by
pragnapcu
• 0
0
votes
0
replies
393
views
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
votes
0
replies
397
views
Comment:
Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
8 months ago by
pragnapcu
• 0
0
votes
2
replies
397
views
Comment:
Comment: How Haplotypecaller could call a 17-bp duplication that is not seen in sorted ba
8 months ago by
pragnapcu
• 0
2
votes
5
replies
397
views
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
votes
0
replies
393
views
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
votes
4
replies
393
views
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
votes
0
replies
386
views
Comment:
Comment: How to Visualize unmapped bam generated from GATK FastqToSam?
8 months ago by
pragnapcu
• 0
2
votes
2
replies
386
views
How to Visualize unmapped bam generated from GATK FastqToSam?
FastqToSam
UnmappedBam
GATK
8 months ago by
pragnapcu
• 0
0
votes
0
replies
402
views
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
0
votes
1
reply
1.9k
views
Comment:
Comment: gCNVKERNEL Error while using GATK 4.1
8 months ago by
pragnapcu
• 0
0
votes
1
reply
665
views
Comment:
Comment: Why different read depth on IGV and in VCF for a variant
10 months ago by
pragnapcu
• 0
2
votes
3
replies
665
views
Why different read depth on IGV and in VCF for a variant
depth
GATK
read
haplotypecaller
IGV
updated 9 months ago by
Friederike
8.7k • written 10 months ago by
pragnapcu
• 0
0
votes
1
reply
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
Pierre Lindenbaum
155k • written 10 months ago by
pragnapcu
• 0
0
votes
0
replies
205
views
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
votes
1
reply
486
views
How to select dataset from 1000 genome
1000genomes
vcf
updated 11 weeks ago by
Ram
39k • written 22 months ago by
pragnapcu
• 0
0
votes
2
replies
1.0k
views
Comment:
Comment: Where do I get a WES dataset of size <1GB
22 months ago by
pragnapcu
• 0
3
votes
5
replies
1.0k
views
Where do I get a WES dataset of size <1GB
WGS
WES
genomics
updated 22 months ago by
German.M.Demidov
★ 2.9k • written 22 months ago by
pragnapcu
• 0
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