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2
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5.1k
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Answer: A: RTG vcfeval: number of variants reported by vcfeval is not equal to actual numbe
5.2 years ago by Len Trigg ★ 1.7k
1
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0
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3.3k
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Answer: A: VCF evaluation using RTG.jar vcfeval
5.2 years ago by Len Trigg ★ 1.7k
0
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0
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1.8k
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Comment: C: Correct reference for Platinum Genomes?
5.6 years ago by Len Trigg ★ 1.7k
2
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1
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1.6k
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Answer: A: Can a command in RTG (or elsewhere) annotate the TP/TN/FP/FN's produced from RTG
5.6 years ago by Len Trigg ★ 1.7k
0
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1
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5.5k
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Comment: C: Why do people not call normal and tumor variant separately for somatic mutation
updated 5.7 years ago by 45k • written 9.6 years ago by ★ 1.7k
0
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0
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6.2k
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Answer: A: PED file format for use with GATK PhaseByTransmission
updated 5.7 years ago by 45k • written 9.7 years ago by ★ 1.7k
4
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1
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6.0k
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Answer: A: Variant calling for MNP
updated 5.8 years ago by 45k • written 10.1 years ago by ★ 1.7k
1
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0
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5.0k
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Comment: C: VCF Record Question
updated 5.9 years ago by 45k • written 10.1 years ago by ★ 1.7k
0
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0
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3.9k
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Comment: C: How to discover new mutations in a derived strain relative to a reference genome
updated 5.9 years ago by 45k • written 10.1 years ago by ★ 1.7k
0
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1
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3.9k
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Answer: A: How to discover new mutations in a derived strain relative to a reference genome
updated 5.9 years ago by 45k • written 10.2 years ago by ★ 1.7k
9
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1
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9.8k
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Answer: Answer: Should you decompose and normalize multi-allelic variants for comparison / ID as
updated 2.8 years ago by 45k • written 10.2 years ago by ★ 1.7k
2
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1
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8.6k
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Answer: A: Modifying fasta file based on vcf information
updated 5.9 years ago by 45k • written 10.3 years ago by ★ 1.7k
0
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0
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2.6k
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Comment: C: SNP discovery at ambiguous positions - how to keep them and get relevant result
updated 6.0 years ago by 45k • written 10.2 years ago by ★ 1.7k
4
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1
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3.8k
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Comment: C: VCF - what are overlapping variants?
6.2 years ago by Len Trigg ★ 1.7k
1
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0
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2.9k
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Comment: C: why is variant calling difficult?
6.6 years ago by Len Trigg ★ 1.7k
0
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0
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3.1k
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Answer: A: Create a pseudo-haploid fasta file based genotype calls for an individual (vcf f
6.8 years ago by Len Trigg ★ 1.7k
0
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0
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29k
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Comment: C: intersect VCF files
updated 7.0 years ago by 45k • written 7.8 years ago by ★ 1.7k
12
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3
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29k
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Answer: A: intersect VCF files
updated 7.0 years ago by 45k • written 9.6 years ago by ★ 1.7k
0
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1
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1.5k
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Answer: A: Simulating Trio Data
7.1 years ago by Len Trigg ★ 1.7k
1
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1
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5.1k
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Answer: A: Identifying De Novo Mutations from vcf files
7.1 years ago by Len Trigg ★ 1.7k
0
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0
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3.1k
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Comment: C: Constructing a mean ROC curve based on 5 iterations
7.2 years ago by Len Trigg ★ 1.7k
1
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0
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9.5k
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Comment: C: compare SV results across samples - Manta, Delly
7.4 years ago by Len Trigg ★ 1.7k
0
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0
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9.5k
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Comment: C: compare SV results across samples - Manta, Delly
7.4 years ago by Len Trigg ★ 1.7k
3
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1
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9.5k
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Answer: A: compare SV results across samples - Manta, Delly
7.4 years ago by Len Trigg ★ 1.7k
0
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0
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16k
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Comment: C: MAF vs VAF
7.5 years ago by Len Trigg ★ 1.7k
1
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1
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5.1k
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Comment: C: Can you assume variants not in VCF are all monomorphic for the reference allele?
7.5 years ago by Len Trigg ★ 1.7k
1
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0
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4.3k
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Answer: A: Indel concordance from different VCF files
7.6 years ago by Len Trigg ★ 1.7k
1
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1
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2.0k
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Answer: C: SMaSH installation error
7.6 years ago by Len Trigg ★ 1.7k
1
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0
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2.9k
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Comment: C: Strategies to call variants from a cancer sample
7.8 years ago by Len Trigg ★ 1.7k
1
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1
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10k
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Comment: C: Edditing headers from a .vcf.gz file
7.8 years ago by Len Trigg ★ 1.7k
0
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2
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2.0k
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Comment: C: Fasted method to genotype given SNPs from NGS data
7.8 years ago by Len Trigg ★ 1.7k
0
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0
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4.8k
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Comment: C: phasing variants to find de novos
7.8 years ago by Len Trigg ★ 1.7k
4
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1
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4.8k
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Comment: C: phasing variants to find de novos
7.9 years ago by Len Trigg ★ 1.7k
0
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0
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4.8k
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Comment: C: phasing variants to find de novos
7.9 years ago by Len Trigg ★ 1.7k
5
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1
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4.8k
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Answer: A: phasing variants to find de novos
7.9 years ago by Len Trigg ★ 1.7k
1
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1
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3.5k
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Comment: C: Do multiple SNPs exist in same chromosome to be called allele?
8.0 years ago by Len Trigg ★ 1.7k
3
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0
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5.2k
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Answer: A: How to measure NGS depth coverage bias
8.0 years ago by Len Trigg ★ 1.7k
1
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1
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9.5k
views
Answer: A: weird insert size post trimming
8.1 years ago by Len Trigg ★ 1.7k
3
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0
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5.4k
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Comment: C: Correct way of merging samples for father, mother, child trio variant calling
8.2 years ago by Len Trigg ★ 1.7k
6
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0
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4.0k
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Answer: A: Difference between NIST VCF and Illumina Platinum Genomes VCF for NA12878
8.2 years ago by Len Trigg ★ 1.7k
6
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1
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3.7k
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Answer: A: Comparing two VCFs and drawing a precision-recall curve
8.2 years ago by Len Trigg ★ 1.7k
2
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0
replies
6.7k
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Answer: A: Extract several fields from vcf file
8.3 years ago by Len Trigg ★ 1.7k
3
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1
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3.7k
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Answer: A: Comparing VCF with dbsnp
8.4 years ago by Len Trigg ★ 1.7k
0
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0
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2.9k
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Answer: A: Filtering a Multi-Sample VCF for variants where at least one sample meets the gi
8.5 years ago by Len Trigg ★ 1.7k
1
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0
replies
9.2k
views
Comment: C: VCF Files: Help on 0/1 1/1 0/0 1/1 | vs / (phased & unphased
8.5 years ago by Len Trigg ★ 1.7k
0
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1
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17k
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Comment: C: Split a VCF file into individual sample files
8.5 years ago by Len Trigg ★ 1.7k
2
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0
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8.2k
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Answer: A: Remove Single Info Field From Vcf
8.5 years ago by Len Trigg ★ 1.7k
3
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0
replies
7.1k
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Answer: A: How to add trio information to VCF or PED format (to compute Mendel error in Pli
8.5 years ago by Len Trigg ★ 1.7k
1
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1
reply
4.5k
views
Answer: A: Number of homozygous and heterozygous variants
8.6 years ago by Len Trigg ★ 1.7k
1
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0
replies
7.7k
views
Answer: A: How to "haploidize" diploid SNPs data in a vcf file
8.6 years ago by Len Trigg ★ 1.7k
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