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26
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21
replies
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Tool for random access to indexed BAM files in S3?
BAM cloud
updated 2.7 years ago by 45k • written 10.2 years ago by ★ 1.6k
16
votes
4
replies
4.8k
views
gVCF files from 1000 Genomes samples
gvcf 1000 Genomes
4.9 years ago by donfreed ★ 1.6k
1
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0
replies
4.8k
views
Answer: A: gVCF files from 1000 Genomes samples
4.9 years ago by donfreed ★ 1.6k
1
vote
1
reply
1.3k
views
Answer: A: Error-prone human genomic sequence data from Illumina sequencing platform
5.1 years ago by donfreed ★ 1.6k
1
vote
0
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3.1k
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Answer: A: Pipeline for analysing multiple tumor/normal exome samples
updated 5.7 years ago by 45k • written 11.3 years ago by ★ 1.6k
0
votes
0
replies
2.8k
views
Answer: A: Identifying mutations from Paired-End Sequencing data
updated 5.7 years ago by 45k • written 11.4 years ago by ★ 1.6k
0
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0
replies
2.6k
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Answer: A: Genotype Calling
updated 5.8 years ago by 45k • written 11.4 years ago by ★ 1.6k
2
votes
0
replies
2.7k
views
Answer: A: Coding postions for genes in RefSeq
updated 5.8 years ago by 45k • written 11.4 years ago by ★ 1.6k
0
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1
reply
6.6k
views
Answer: A: CNVnator installation error
updated 5.8 years ago by 45k • written 9.7 years ago by ★ 1.6k
3
votes
2
replies
4.0k
views
Answer: A: Can germline vs somatic variants be distinguished by phasing when no control is
updated 5.8 years ago by 45k • written 9.8 years ago by ★ 1.6k
0
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0
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4.0k
views
Comment: C: Can germline vs somatic variants be distinguished by phasing when no control is
updated 5.8 years ago by 45k • written 9.8 years ago by ★ 1.6k
45
votes
2
replies
62k
views
Answer: A: What are chimeric reads?
updated 5.9 years ago by 45k • written 10.9 years ago by ★ 1.6k
0
votes
0
replies
8.6k
views
Comment: C: Modifying fasta file based on vcf information
7.6 years ago by donfreed ★ 1.6k
0
votes
0
replies
3.9k
views
Comment: C: how to distinguish mosaicism out of germline de novo mutations
7.6 years ago by donfreed ★ 1.6k
3
votes
1
reply
3.9k
views
Answer: A: how to distinguish mosaicism out of germline de novo mutations
7.6 years ago by donfreed ★ 1.6k
1
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0
replies
4.6k
views
Answer: A: Mutect 2 on WGS data takes too long to run
8.1 years ago by donfreed ★ 1.6k
1
vote
1
reply
4.0k
views
Answer: A: How to find variants that are common in one population but rare in others (popul
8.7 years ago by donfreed ★ 1.6k
1
vote
1
reply
4.0k
views
Comment: C: I want to store a docker image reproducing a paper. Is there a host for docker i
9.1 years ago by donfreed ★ 1.6k
2
votes
1
reply
4.8k
views
Comment: C: gVCF files from 1000 Genomes samples
9.3 years ago by donfreed ★ 1.6k
2
votes
0
replies
2.6k
views
Answer: Answer: A command line option for region in GenotypeGVCFs?
updated 3.2 years ago by 45k • written 9.6 years ago by ★ 1.6k
1
vote
0
replies
2.0k
views
Answer: A: Algorithm to find PL indicies containing a specific allele
9.6 years ago by donfreed ★ 1.6k
1
vote
1
reply
2.0k
views
Algorithm to find PL indicies containing a specific allele
VCF sequencing algorithm
updated 3.1 years ago by 45k • written 9.6 years ago by ★ 1.6k
0
votes
0
replies
2.9k
views
Comment: C: Calculation of PFBs for CNV analysis from 1000 Genomes data
9.8 years ago by donfreed ★ 1.6k
1
vote
1
reply
14k
views
Comment: Comment: Tool for random access to indexed BAM files in S3?
updated 3.1 years ago by 45k • written 9.8 years ago by ★ 1.6k
2
votes
2
replies
14k
views
Comment: Comment: Tool for random access to indexed BAM files in S3?
updated 3.0 years ago by 45k • written 10.0 years ago by ★ 1.6k
0
votes
0
replies
3.0k
views
Comment: Comment: 1000 genomes technical data: match exon capture probes to samples
updated 2.9 years ago by 45k • written 10.1 years ago by ★ 1.6k
0
votes
1
reply
14k
views
Comment: C: Tool for random access to indexed BAM files in S3?
10.2 years ago by donfreed ★ 1.6k
2
votes
0
replies
14k
views
Comment: C: Tool for random access to indexed BAM files in S3?
10.2 years ago by donfreed ★ 1.6k
0
votes
2
replies
2.9k
views
Calculation of PFBs for CNV analysis from 1000 Genomes data
snp microarry sequencing penncnv
updated 10.3 years ago by 20 • written 11.4 years ago by ★ 1.6k
0
votes
0
replies
2.9k
views
Comment: Comment: No more hidden solutions in bioinformatics
updated 2.7 years ago by 45k • written 10.3 years ago by ★ 1.6k
0
votes
1
reply
7.5k
views
Comment: C: bwa mem runs slowly the first time
10.3 years ago by donfreed ★ 1.6k
0
votes
1
reply
7.5k
views
Comment: Comment: bwa mem runs slowly the first time
updated 2.7 years ago by 45k • written 10.3 years ago by ★ 1.6k
0
votes
1
reply
7.5k
views
Answer: A: bwa mem runs slowly the first time
10.3 years ago by donfreed ★ 1.6k
6
votes
0
replies
4.8k
views
Answer: Answer: Phasing trios for identification of denovo variants
updated 2.6 years ago by 45k • written 10.3 years ago by ★ 1.6k
0
votes
1
reply
6.3k
views
Comment: C: dbGaP, error downloading files
10.4 years ago by donfreed ★ 1.6k
1
vote
1
reply
5.1k
views
Answer: A: What are most recommended / state-of-the-art whole genome FASTQ datasets for ben
10.4 years ago by donfreed ★ 1.6k
0
votes
0
replies
4.3k
views
Answer: Answer: Unaligning BAM files
updated 3.3 years ago by 45k • written 10.5 years ago by ★ 1.6k
1
vote
2
replies
14k
views
Comment: Comment: bwa mem perfectly align reads over their entire length
updated 3.4 years ago by 45k • written 10.6 years ago by ★ 1.6k
2
votes
0
replies
4.1k
views
Answer: Answer: Getting started with NGS analysis, common issues?
updated 3.4 years ago by 45k • written 10.6 years ago by ★ 1.6k
3
votes
1
reply
3.5k
views
Answer: Answer: Get Reference file from BAM
updated 3.5 years ago by 45k • written 10.7 years ago by ★ 1.6k
5
votes
0
replies
8.6k
views
Answer: Answer: Validated CNV dataset for NA12878
updated 3.5 years ago by 45k • written 10.7 years ago by ★ 1.6k
1
vote
1
reply
1.9k
views
Answer: Answer: Dot mark in 1000 genome project
updated 3.5 years ago by 45k • written 10.8 years ago by ★ 1.6k
2
votes
0
replies
4.5k
views
Answer: Answer: What is appropriate coverage/quality filter for GATK for germline variants?
updated 3.6 years ago by 45k • written 10.8 years ago by ★ 1.6k
1
vote
1
reply
4.5k
views
Comment: Comment: What is appropriate coverage/quality filter for GATK for germline variants?
updated 3.6 years ago by 45k • written 10.8 years ago by ★ 1.6k
0
votes
1
reply
4.5k
views
Comment: Comment: What is appropriate coverage/quality filter for GATK for germline variants?
updated 3.6 years ago by 45k • written 10.8 years ago by ★ 1.6k
4
votes
1
reply
62k
views
Comment: C: What are chimeric reads?
10.9 years ago by donfreed ★ 1.6k
5
votes
1
reply
6.7k
views
Answer: Answer: Do freeBayes and platypus support gVCF (ie incremental variant calling for large
updated 3.7 years ago by 45k • written 11.0 years ago by ★ 1.6k
7
votes
0
replies
160k
views
Answer: Answer: from .BAM to .BAI using samtools
updated 3.7 years ago by 45k • written 11.0 years ago by ★ 1.6k
4
votes
0
replies
6.4k
views
Answer: Answer: Haplotype frequencies from 1000 genomes
updated 3.7 years ago by 45k • written 11.0 years ago by ★ 1.6k
2
votes
0
replies
11k
views
Comment: Comment: Is it possible to reconstruct alignment from CIGAR and MD strings alone?
updated 3.7 years ago by 45k • written 11.0 years ago by ★ 1.6k
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