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0
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2
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772
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Low coverage whole genome sequencing reveal excess heterozygosity for multiple SNPs. How to filter?
lcWGS WGS heterozygosity
11 months ago by beausoleilmo ▴ 600
0
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0
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772
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Comment: Comment: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S
11 months ago by beausoleilmo ▴ 600
0
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0
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371
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How to extract only neutral markers from low-coverage whole genome sequencing?
low-coverage whole-genome-sequencing
updated 17 months ago by 44k • written 17 months ago by ▴ 600
2
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0
replies
7.9k
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Answer: Answer: VCF header line counting
18 months ago by beausoleilmo ▴ 600
0
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1
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6.6k
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Comment: Comment: Help making ADMIXTURE output digestible
22 months ago by beausoleilmo ▴ 600
0
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0
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7.0k
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Comment: Comment: Why Is Blast Creating Duplicates In My Output Files?!
23 months ago by beausoleilmo ▴ 600
2
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0
replies
798
views
How to convert a Beagle file 3.3 to VCF with beagle2vcf.jar?
conversion vcf beagle
23 months ago by beausoleilmo ▴ 600
0
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0
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689
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Comment: Comment: Left or right join between 2 BAM files (remove reads the should be filtered out
24 months ago by beausoleilmo ▴ 600
0
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2
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689
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Left or right join between 2 BAM files (remove reads the should be filtered out for sex chromosomes)
sex chromosomes BAM filtering
24 months ago by beausoleilmo ▴ 600
2
votes
2
replies
986
views
How to rename chromosome_position column in a Beagle file and match it with the index fai?
chromosome index fai regex beagle
updated 2.1 years ago by ▴ 80 • written 2.1 years ago by ▴ 600
0
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0
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2.5k
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Comment: Comment: Is there a way to calculate breadth of coverage from a VCF?
2.1 years ago by beausoleilmo ▴ 600
2
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5
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2.5k
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Is there a way to calculate breadth of coverage from a VCF?
VCF Coverage Beagle
2.1 years ago by beausoleilmo ▴ 600
1
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0
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2.5k
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Answer: Answer: Is there a way to calculate breadth of coverage from a VCF?
2.1 years ago by beausoleilmo ▴ 600
0
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0
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59k
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Comment: Comment: How to extract specific chromosome from vcf file
2.1 years ago by beausoleilmo ▴ 600
0
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0
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15k
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Comment: Comment: Convert fastq.gz to fastq.bgz
2.1 years ago by beausoleilmo ▴ 600
0
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1
reply
15k
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Comment: Comment: Convert fastq.gz to fastq.bgz
2.1 years ago by beausoleilmo ▴ 600
0
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0
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2.5k
views
Comment: Comment: Is there a way to calculate breadth of coverage from a VCF?
2.2 years ago by beausoleilmo ▴ 600
0
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0
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4.6k
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Comment: Comment: Calculate Fst to draw Manhattan plot
2.7 years ago by beausoleilmo ▴ 600
0
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0
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5.2k
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Comment: Comment: Error while creating .geno file with LEA
3.5 years ago by beausoleilmo ▴ 600
0
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0
replies
1.9k
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Comment: C: Detect sex chromosomes from WGS on a bird species (with reference genome)
4.3 years ago by beausoleilmo ▴ 600
2
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2
replies
2.3k
views
Error running sam-dump
sam NCBI BAM samtools
updated 4.3 years ago by 20 • written 8.1 years ago by ▴ 600
2
votes
8
replies
1.9k
views
Detect sex chromosomes from WGS on a bird species (with reference genome)
WGS chromosomes
updated 3.3 years ago by ▴ 30 • written 4.7 years ago by ▴ 600
0
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0
replies
5.2k
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Comment: C: Error while creating .geno file with LEA
4.4 years ago by beausoleilmo ▴ 600
6
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5
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5.2k
views
Error while creating .geno file with LEA
LEA geno VCF
3.5 years ago by beausoleilmo ▴ 600
0
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0
replies
5.2k
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Comment: C: Error while creating .geno file with LEA
4.4 years ago by beausoleilmo ▴ 600
0
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0
replies
1.9k
views
Comment: C: Detect sex chromosomes from WGS on a bird species (with reference genome)
4.7 years ago by beausoleilmo ▴ 600
0
votes
2
replies
1.9k
views
Comment: C: Detect sex chromosomes from WGS on a bird species (with reference genome)
4.7 years ago by beausoleilmo ▴ 600
0
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0
replies
11k
views
Answer: A: dxy (Nei 1987) calculation
4.8 years ago by beausoleilmo ▴ 600
0
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0
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2.9k
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Comment: C: ShapeIt giving Segfault 11?
4.8 years ago by beausoleilmo ▴ 600
1
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0
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1.7k
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Building a reference database for metabarcoding and obitools
embl metabarcoding reference database plants diet
4.8 years ago by beausoleilmo ▴ 600
0
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0
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4.3k
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Answer: A: Admixture - Abort trap: 6
4.8 years ago by beausoleilmo ▴ 600
9
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2
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36k
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Answer: Answer: Sort VCF File by Position?
4.8 years ago by beausoleilmo ▴ 600
0
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0
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8.7k
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Comment: C: Fast LD computation from VCF files using tomahawk
4.8 years ago by beausoleilmo ▴ 600
0
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0
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26k
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Comment: C: LD-decay in a r2 vs distance(cm) plot
4.8 years ago by beausoleilmo ▴ 600
3
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0
replies
7.9k
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Answer: A: How to parallelize bcftools mpileup with GNU parallel?
4.8 years ago by beausoleilmo ▴ 600
8
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6
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7.9k
views
6 follow
How to parallelize bcftools mpileup with GNU parallel?
bcftools mpileup parallel
updated 3.1 years ago by ▴ 60 • written 4.8 years ago by ▴ 600
16
votes
3
replies
13k
views
What is the difference between mpileup samtools and bcftools?
bcftools samtools mpileup variant calling SNP
updated 4.8 years ago by ★ 1.3k • written 4.8 years ago by ▴ 600
0
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0
replies
13k
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Comment: C: What is the difference between mpileup samtools and bcftools?
4.8 years ago by beausoleilmo ▴ 600
7
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6
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5.4k
views
Running BWA mem in a for loop
BWA alignment WGS
updated 4.8 years ago by ▴ 220 • written 4.8 years ago by ▴ 600
0
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0
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5.4k
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Comment: C: Running BWA mem in a for loop
4.8 years ago by beausoleilmo ▴ 600
0
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1
reply
5.4k
views
Comment: C: Running BWA mem in a for loop
4.8 years ago by beausoleilmo ▴ 600
0
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0
replies
51k
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Comment: C: How do you cite a tool that doesn't have a publication?
4.8 years ago by beausoleilmo ▴ 600
0
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0
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1.3k
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Comment: C: ecoPCR won't install on Mac (Mojave 10.14.5)
5.1 years ago by beausoleilmo ▴ 600
2
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2
replies
1.3k
views
ecoPCR won't install on Mac (Mojave 10.14.5)
ecoPCR metabarcoding
5.1 years ago by beausoleilmo ▴ 600
1
vote
1
reply
1.2k
views
Chromosome naming convention: Why are there chromosomes named "1" and "1A"?
Chromosome Zebra Finch
5.2 years ago by beausoleilmo ▴ 600
0
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0
replies
2.1k
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Comment: C: Is it a problem that the reference genome is not at the chromosome level?
5.3 years ago by beausoleilmo ▴ 600
0
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1
reply
2.1k
views
Comment: C: Is it a problem that the reference genome is not at the chromosome level?
5.3 years ago by beausoleilmo ▴ 600
0
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1
reply
2.1k
views
Comment: C: Is it a problem that the reference genome is not at the chromosome level?
5.3 years ago by beausoleilmo ▴ 600
6
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6
replies
2.1k
views
Is it a problem that the reference genome is not at the chromosome level?
Chromosome reference genome scaffolds
updated 5.3 years ago by ★ 3.8k • written 5.3 years ago by ▴ 600
0
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0
replies
2.1k
views
Comment: C: How to process degenerate base region (DBRs) in a ddRAD sequencing protocol (rem
5.8 years ago by beausoleilmo ▴ 600
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