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Comment: Comment: How to interpret deletion the length of chromosome?
13 days ago by optimistsso4co3 ▴ 100
0
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3
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342
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How to interpret deletion the length of chromosome?
del
updated 13 days ago by 152k • written 13 days ago by ▴ 100
0
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7
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601
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Is it possible to query column of particular sample on VCF?
vcf
6 months ago by optimistsso4co3 ▴ 100
0
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0
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601
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Answer: Answer: Is it possible to query column of particular sample on VCF?
6 months ago by optimistsso4co3 ▴ 100
3
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6
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570
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How to filter VCF for only variants present in particular sample?
vcf
6 months ago by optimistsso4co3 ▴ 100
1
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0
replies
570
views
Answer: Answer: How to filter VCF for only variants present in particular sample?
6 months ago by optimistsso4co3 ▴ 100
0
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0
replies
570
views
Comment: Comment: How to filter VCF for only variants present in particular sample?
6 months ago by optimistsso4co3 ▴ 100
0
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1
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570
views
Comment: Comment: How to filter VCF for only variants present in particular sample?
6 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
570
views
Answer: Answer: How to filter VCF for only variants present in particular sample?
6 months ago by optimistsso4co3 ▴ 100
0
votes
0
replies
601
views
Comment: Comment: Is it possible to query column of particular sample on VCF?
6 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
601
views
Comment: Comment: Is it possible to query column of particular sample on VCF?
6 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
601
views
Comment: Comment: Is it possible to query column of particular sample on VCF?
6 months ago by optimistsso4co3 ▴ 100
1
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2
replies
334
views
Is it possible to annotate each person individually with VEP?
VEP
updated 6 months ago by 1.8k • written 6 months ago by ▴ 100
1
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1
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255
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Is there a tool to standartise ANY kind of human variant list file? (like vcf, plink, 23andMe etc)
23andme
updated 6 months ago by 2.6k • written 6 months ago by ▴ 100
0
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1
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313
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Where to find Structural variant database dgvMerged for ANNOVAR?
annovar
6 months ago by optimistsso4co3 ▴ 100
0
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0
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313
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Answer: Answer: Where to find Structural variant database dgvMerged for ANNOVAR?
6 months ago by optimistsso4co3 ▴ 100
0
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0
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253
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How to control number of cores GATK can use?
gatk
7 months ago by optimistsso4co3 ▴ 100
0
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0
replies
589
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Comment: Comment: Research Scientist (Fungal & Algal Program)
7 months ago by optimistsso4co3 ▴ 100
0
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0
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265
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Do you have to select "pulled" or "final" bam in MELT mobile element discovery step of genotyping?
melt
7 months ago by optimistsso4co3 ▴ 100
0
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0
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373
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Comment: Comment: Mobile element discovery with MELT brings different results when chromosomes are
8 months ago by optimistsso4co3 ▴ 100
0
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2
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373
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Mobile element discovery with MELT brings different results when chromosomes are analysed separate
melt
8 months ago by optimistsso4co3 ▴ 100
1
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1
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279
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Is it possible to add variant type "VT" to each variant in vcf?
bcftools
updated 8 months ago by 37k • written 8 months ago by ▴ 100
0
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3
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317
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gatk requests enormous amounts of memory. How to limit it?
gatk
updated 8 months ago by ▴ 790 • written 8 months ago by ▴ 100
0
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0
replies
230
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How to extract region from GVCF file?
GVCF
9 months ago by optimistsso4co3 ▴ 100
1
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1
reply
229
views
How to calculate indels per individual?
vcf
updated 12 months ago by 152k • written 12 months ago by ▴ 100
1
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1
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536
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How to prepare vcf for use with Picard?
picard
updated 12 months ago by 152k • written 12 months ago by ▴ 100
0
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0
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255
views
How to fill vcf ALT field for sites where it's missing?
vcf
12 months ago by optimistsso4co3 ▴ 100
0
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0
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409
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Comment: Comment: How to correct for allele frequency mismatches?
12 months ago by optimistsso4co3 ▴ 100
2
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2
replies
409
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How to correct for allele frequency mismatches?
plink
12 months ago by optimistsso4co3 ▴ 100
6
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10
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949
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Why isn't it a common practice to call variant for every position in human genome?
ngs
updated 13 months ago by 21k • written 13 months ago by ▴ 100
1
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0
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949
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Comment: Comment: Why isn't it a common practice to call variant for every position in human genom
13 months ago by optimistsso4co3 ▴ 100
0
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0
replies
949
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Comment: Comment: Why isn't it a common practice to call variant for every position in human genom
13 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
949
views
Comment: Comment: Why isn't it a common practice to call variant for every position in human genom
13 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
949
views
Comment: Comment: Why isn't it a common practice to call variant for every position in human genom
13 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
365
views
Fastest pipeline for large scale joint genotype calling?
calling
updated 14 months ago by 152k • written 14 months ago by ▴ 100
0
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0
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261
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Is there such thing as GVCF for structural variants allowing population genetics on SVs?
sv
14 months ago by optimistsso4co3 ▴ 100
2
votes
1
reply
320
views
How to extract specific location in .bam files
bam
updated 14 months ago by 125k • written 14 months ago by ▴ 100
0
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1
reply
424
views
Is it correct to merge multiple gvcf from separate variant calling?
gatk
updated 14 months ago by 21k • written 14 months ago by ▴ 100
0
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0
replies
486
views
Comment: Comment: Wha does combineGVCFs does to loci with variant only in gVCF from another analys
14 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
486
views
Wha does combineGVCFs does to loci with variant only in gVCF from another analysis?
gatk
14 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
786
views
Comment: Comment: What are "must have" data types one should extract from WGS .fq data?
15 months ago by optimistsso4co3 ▴ 100
0
votes
1
reply
786
views
Comment: Comment: What are "must have" data types one should extract from WGS .fq data?
15 months ago by optimistsso4co3 ▴ 100
0
votes
5
replies
786
views
What are "must have" data types one should extract from WGS .fq data?
wgs
updated 15 months ago by 152k • written 15 months ago by ▴ 100
0
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1
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550
views
Comment: Comment: Is it ok to replace missing WGS calls with reference notation "0/0"?
15 months ago by optimistsso4co3 ▴ 100
6
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3
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550
views
Is it ok to replace missing WGS calls with reference notation "0/0"?
wgs
updated 15 months ago by 152k • written 15 months ago by ▴ 100
5
votes
1
reply
1.8k
views
Can someone explain PLINK allele REF/ALT management strategy?
plink
updated 15 months ago by 9.9k • written 15 months ago by ▴ 100
2
votes
1
reply
482
views
What is the largest freely available dataset of WGS samples?
wgs
updated 15 months ago by ▴ 240 • written 15 months ago by ▴ 100
0
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1
reply
729
views
How to best predict effect for each variant and count specific effect found in each individual using variant effect predictor?
vcf vep
updated 16 months ago by 23k • written 16 months ago by ▴ 100
0
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1
reply
1.2k
views
Comment: Comment: How to pass custom software specific variables to nf-core/sarek nextflow pipelin
18 months ago by optimistsso4co3 ▴ 100
0
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2
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1.2k
views
Comment: Comment: How to pass custom software specific variables to nf-core/sarek nextflow pipelin
18 months ago by optimistsso4co3 ▴ 100
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