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8
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15
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Iterating through paired-end reads in samtools / pysam
BAM SAM Python
updated 2.4 years ago by • 0 • written 6.3 years ago by ▴ 150
10
votes
3
replies
6.2k
views
How to add trio information to VCF or PED format (to compute Mendel error in Plink)
plink vcftools SNP
updated 5.3 years ago by 20 • written 7.4 years ago by ▴ 150
0
votes
0
replies
5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.5 years ago by olavur ▴ 150
0
votes
2
replies
5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.5 years ago by olavur ▴ 150
0
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0
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5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.5 years ago by olavur ▴ 150
3
votes
14
replies
5.2k
views
Is there a tool or method for phasing a VCF based on an already phased BAM?
vcf bam phasing haplotype
5.7 years ago by olavur ▴ 150
0
votes
1
reply
5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.7 years ago by olavur ▴ 150
0
votes
0
replies
5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.7 years ago by olavur ▴ 150
0
votes
1
reply
5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.7 years ago by olavur ▴ 150
0
votes
1
reply
5.2k
views
Comment: C: Is there a tool or method for phasing a VCF based on an already phased BAM?
5.7 years ago by olavur ▴ 150
0
votes
1
reply
13k
views
Comment: C: Iterating through paired-end reads in samtools / pysam
5.9 years ago by olavur ▴ 150
0
votes
0
replies
13k
views
Comment: C: Iterating through paired-end reads in samtools / pysam
6.0 years ago by olavur ▴ 150
0
votes
0
replies
13k
views
Comment: C: Iterating through paired-end reads in samtools / pysam
6.3 years ago by olavur ▴ 150
0
votes
1
reply
13k
views
Comment: C: Iterating through paired-end reads in samtools / pysam
6.3 years ago by olavur ▴ 150
0
votes
1
reply
1.9k
views
Comment: C: Variants with multiple functional annotations -- counting occurrences
6.4 years ago by olavur ▴ 150
3
votes
3
replies
1.9k
views
Variants with multiple functional annotations -- counting occurrences
VCF annotation
updated 6.4 years ago by 88k • written 6.4 years ago by ▴ 150
0
votes
0
replies
3.6k
views
Comment: C: vcf-merge is giving me a few SNPs in the merged vcf file
6.6 years ago by olavur ▴ 150
0
votes
0
replies
3.6k
views
Answer: A: vcf-merge is giving me a few SNPs in the merged vcf file
6.6 years ago by olavur ▴ 150
1
vote
0
replies
5.5k
views
Comment: C: Call missing variants in VCF as reference allele
6.8 years ago by olavur ▴ 150
7
votes
2
replies
5.5k
views
Call missing variants in VCF as reference allele
SNP genome VCF
6.8 years ago by olavur ▴ 150
0
votes
1
reply
10k
views
Comment: C: Samtools gives "truncated file" when trying to view a "reheaded" file
6.9 years ago by olavur ▴ 150
0
votes
1
reply
10k
views
Comment: C: Samtools gives "truncated file" when trying to view a "reheaded" file
6.9 years ago by olavur ▴ 150
0
votes
2
replies
10k
views
Comment: C: Samtools gives "truncated file" when trying to view a "reheaded" file
6.9 years ago by olavur ▴ 150
7
votes
13
replies
10k
views
Samtools gives "truncated file" when trying to view a "reheaded" file
software error next-gen sequence samtools
updated 6.9 years ago by 104k • written 6.9 years ago by ▴ 150
0
votes
1
reply
4.5k
views
Comment: C: NGS data storage and management
6.9 years ago by olavur ▴ 150
0
votes
0
replies
4.5k
views
Comment: C: NGS data storage and management
6.9 years ago by olavur ▴ 150
0
votes
0
replies
2.0k
views
Comment: C: GaTK reverse select interval list
6.9 years ago by olavur ▴ 150
0
votes
0
replies
4.5k
views
Comment: C: NGS data storage and management
6.9 years ago by olavur ▴ 150
0
votes
0
replies
4.5k
views
Comment: C: NGS data storage and management
6.9 years ago by olavur ▴ 150
4
votes
11
replies
4.5k
views
NGS data storage and management
next-gen NGS databases genome browsers
updated 19 days ago by • 0 • written 6.9 years ago by ▴ 150
0
votes
1
reply
4.5k
views
Comment: C: NGS data browser and
6.9 years ago by olavur ▴ 150
0
votes
0
replies
3.6k
views
Comment: C: How can I create a dummy dataset from my NGS whole-exome data?
7.0 years ago by olavur ▴ 150
0
votes
2
replies
3.6k
views
Comment: C: How can I create a dummy dataset from my NGS whole-exome data?
7.0 years ago by olavur ▴ 150
0
votes
1
reply
3.6k
views
Comment: C: How can I create a dummy dataset from my NGS whole-exome data?
7.0 years ago by olavur ▴ 150
7
votes
10
replies
3.6k
views
How can I create a dummy dataset from my NGS whole-exome data?
next-gen FASTQ alignment
updated 21 months ago by ▴ 40 • written 7.0 years ago by ▴ 150
0
votes
1
reply
3.1k
views
Comment: C: When should you de novo assemble a whole-genome, and when should you simply alig
7.1 years ago by olavur ▴ 150
0
votes
1
reply
3.1k
views
Comment: C: When should you de novo assemble a whole-genome, and when should you simply alig
7.1 years ago by olavur ▴ 150
7
votes
6
replies
3.1k
views
When should you de novo assemble a whole-genome, and when should you simply align it to a reference?
assembly alignment whole-genome
updated 7.1 years ago by 101k • written 7.1 years ago by ▴ 150
4
votes
2
replies
2.2k
views
What is contained in the GRCh38 reference, and how was it constructed?
genome Assembly next-gen
updated 7.1 years ago by 101k • written 7.1 years ago by ▴ 150
0
votes
2
replies
2.9k
views
Full-stop/period as SNP identifier in BIM file causes error in Plink v1.9 --read-freq command
plink snp
updated 7.2 years ago by ▴ 60 • written 7.2 years ago by ▴ 150
0
votes
0
replies
3.8k
views
Comment: C: Inconsistency in VCF and Plink format after conversion
7.3 years ago by olavur ▴ 150
1
vote
1
reply
3.7k
views
Comment: C: problem with vcf file
7.3 years ago by olavur ▴ 150
0
votes
0
replies
3.8k
views
Comment: C: Inconsistency in VCF and Plink format after conversion
7.4 years ago by olavur ▴ 150
0
votes
1
reply
3.8k
views
Comment: C: Inconsistency in VCF and Plink format after conversion
7.4 years ago by olavur ▴ 150
4
votes
10
replies
3.8k
views
Inconsistency in VCF and Plink format after conversion
vcftools plink
7.4 years ago by olavur ▴ 150
0
votes
1
reply
3.8k
views
Comment: C: Inconsistency in VCF and Plink format after conversion
7.4 years ago by olavur ▴ 150
0
votes
1
reply
3.8k
views
Comment: C: Inconsistency in VCF and Plink format after conversion
7.4 years ago by olavur ▴ 150
3
votes
0
replies
6.2k
views
Answer: A: How to add trio information to VCF or PED format (to compute Mendel error in Pli
7.4 years ago by olavur ▴ 150
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