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Comment: C: intersect VCF files
8.4 years ago by Len Trigg ★ 1.7k
2
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1
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2.5k
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Answer: A: GA4GH hap.py understanding
8.5 years ago by Len Trigg ★ 1.7k
10
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0
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27k
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Answer: A: Best way to compare two samples in a VCF file
8.5 years ago by Len Trigg ★ 1.7k
1
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1
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6.0k
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Comment: C: Genotype representation for male chromosome X and Y
8.8 years ago by Len Trigg ★ 1.7k
2
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1
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3.9k
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Answer: A: Non-cancer somatic mutation calling
9.1 years ago by Len Trigg ★ 1.7k
5
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0
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5.7k
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Answer: A: How Does Left-Alignment Work For Indels? Does It Address All Complicated Issues
9.1 years ago by Len Trigg ★ 1.7k
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0
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3.2k
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Answer: A: How is QUAL score calculated in multigenome VCF file?
9.1 years ago by Len Trigg ★ 1.7k
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1
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4.5k
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Comment: C: how to add pedigree info into VCF
9.2 years ago by Len Trigg ★ 1.7k
2
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1
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4.5k
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Comment: C: how to add pedigree info into VCF
9.2 years ago by Len Trigg ★ 1.7k
2
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0
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6.2k
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Answer: A: MuTect2's variants missing QUAL score
9.2 years ago by Len Trigg ★ 1.7k
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1
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2.6k
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Comment: C: about the use of varscan, somaticsnipper and samtools
9.3 years ago by Len Trigg ★ 1.7k
1
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0
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5.2k
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Answer: A: mapping metagenomics samples to multiple references genome
9.7 years ago by Len Trigg ★ 1.7k
1
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1
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2.6k
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Answer: Answer: indel position in repetitive regions
updated 2.8 years ago by 45k • written 9.7 years ago by ★ 1.7k
3
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0
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10k
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Comment: C: fastq compression tools of choice
9.8 years ago by Len Trigg ★ 1.7k
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0
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2.2k
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Answer: Answer: Convert reads alginment results of NGS metagenomic sample into abundance score
updated 2.7 years ago by 45k • written 9.8 years ago by ★ 1.7k
1
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0
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1.8k
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Answer: Answer: Theoretical genome sequence
updated 2.7 years ago by 45k • written 9.8 years ago by ★ 1.7k
13
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1
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27k
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Answer: Answer: Variant call format (VCF) file, how to get statistics per sample?
updated 2.7 years ago by 45k • written 9.8 years ago by ★ 1.7k
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0
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5.0k
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Answer: Answer: VCF genotype generator
updated 2.7 years ago by 45k • written 9.8 years ago by ★ 1.7k
2
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0
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2.0k
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Answer: Answer: Need recommendations for Family aware Variant/indel caller for WGS data
updated 2.6 years ago by 45k • written 9.9 years ago by ★ 1.7k
1
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0
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10k
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Answer: Answer: randomly shuffle BAM file
updated 2.6 years ago by 45k • written 9.9 years ago by ★ 1.7k
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0
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7.8k
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Answer: A: How to align DNA reads against a database of protein references
9.9 years ago by Len Trigg ★ 1.7k
1
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1
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7.5k
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Comment: Comment: Substitution error rate and indel error rate from BAM file
updated 2.5 years ago by 45k • written 9.9 years ago by ★ 1.7k
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0
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8.2k
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Comment: C: Modifying fasta file based on vcf information
10.0 years ago by Len Trigg ★ 1.7k
1
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0
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2.7k
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Answer: Answer: Sensitivity of variant calling
updated 2.5 years ago by 45k • written 10.0 years ago by ★ 1.7k
1
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0
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7.8k
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Answer: Answer: How to handle chr Y data in BAM files from exome sequencing of human females
updated 2.5 years ago by 45k • written 10.0 years ago by ★ 1.7k
2
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0
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2.3k
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Answer: Answer: GATK creating hs_err_pid.log file
updated 2.4 years ago by 45k • written 10.0 years ago by ★ 1.7k
0
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0
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3.3k
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Comment: Comment: The CIGAR '=' op for 'sequence match' in SAM - how and why?
updated 2.4 years ago by 45k • written 10.1 years ago by ★ 1.7k
1
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0
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6.1k
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Answer: Answer: SNP calling pipeline - testing different programs
updated 2.4 years ago by 45k • written 10.1 years ago by ★ 1.7k
0
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1
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4.7k
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Comment: Comment: How to identify Denovo Mutations in the child compared with parents?
updated 2.3 years ago by 45k • written 10.1 years ago by ★ 1.7k
0
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1
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4.7k
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Answer: Answer: How to identify Denovo Mutations in the child compared with parents?
updated 2.3 years ago by 45k • written 10.1 years ago by ★ 1.7k
1
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0
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6.1k
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Answer: Answer: What are acceptable SNP QUAL and GQ thresholds to filter on?
updated 2.3 years ago by 45k • written 10.1 years ago by ★ 1.7k
0
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0
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5.1k
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Answer: Answer: Generate genotype specific FASTA sequences from VCF file and reference sequence
updated 2.9 years ago by 45k • written 10.1 years ago by ★ 1.7k
2
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0
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5.5k
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Answer: Answer: Multiple VCF file comparision
updated 2.9 years ago by 45k • written 10.1 years ago by ★ 1.7k
1
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1
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16k
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Answer: Answer: Split a VCF file into individual sample files
updated 3.0 years ago by 45k • written 10.2 years ago by ★ 1.7k
0
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0
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3.4k
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Answer: Answer: Which Somatic SNP Callers to Benchmark?
updated 3.0 years ago by 45k • written 10.2 years ago by ★ 1.7k
1
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0
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5.7k
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Answer: Answer: An Alternative To Blastx With Speed Similar To Bowtie
updated 3.0 years ago by 45k • written 10.2 years ago by ★ 1.7k
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0
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2.3k
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Comment: C: get a set of reliable SNPs when knowing parent and child relationship
10.2 years ago by Len Trigg ★ 1.7k
1
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0
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2.4k
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Answer: Answer: SNPs from bam file with no ref
updated 3.1 years ago by 45k • written 10.2 years ago by ★ 1.7k
0
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0
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2.3k
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Answer: Answer: get a set of reliable SNPs when knowing parent and child relationship
updated 3.1 years ago by 45k • written 10.3 years ago by ★ 1.7k
0
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0
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9.5k
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Comment: Comment: Comparing Genotypes from NA12878 to that of her parents (NA12891 and NA12892)
updated 3.1 years ago by 45k • written 10.3 years ago by ★ 1.7k
2
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1
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9.5k
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Answer: Answer: Comparing Genotypes from NA12878 to that of her parents (NA12891 and NA12892)
updated 3.1 years ago by 45k • written 10.3 years ago by ★ 1.7k
0
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2
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5.5k
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Answer: Answer: Questions on tagging low qual variants and DP filtering on a joint VCF (generate
updated 3.1 years ago by 45k • written 10.3 years ago by ★ 1.7k
5
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1
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8.5k
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Comment: Comment: VCF header line counting
updated 3.1 years ago by 45k • written 10.3 years ago by ★ 1.7k
1
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1
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2.7k
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Answer: Answer: Tool to obtain phased genotypes for family quartet?
updated 3.1 years ago by 45k • written 10.3 years ago by ★ 1.7k
1
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0
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14k
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Answer: Answer: How to calculate organism relative abundance from Illumina metagenomic data?
updated 3.2 years ago by 45k • written 10.3 years ago by ★ 1.7k
1
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0
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25k
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Answer: A: Is There A List Of Top N Bioinformatics Or Genome Software Company Or Studio ?
14.0 years ago by Len Trigg ★ 1.7k
1
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0
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7.2k
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Answer: Answer: Has Anyone Had Experience With Complete Genomics Sequencing And Data Analysis?
updated 4.2 years ago by 45k • written 14.0 years ago by ★ 1.7k
0
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0
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3.8k
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Comment: C: Macrogen Vs Complete Genomics
14.0 years ago by Len Trigg ★ 1.7k
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