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1.4k
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Bcftools Mpileup bias for alternative alleles?
mpileup
bcftools
SNP
gatk
updated 4.5 years ago by
Kevin Blighe
88k • written 4.5 years ago by
cetin.m
▴ 50
4
votes
5
replies
2.7k
views
Plink --freq function
plink
updated 4.8 years ago by
chrchang523
11k • written 4.9 years ago by
cetin.m
▴ 50
0
votes
1
reply
2.7k
views
Comment:
C: Plink --freq function
4.9 years ago by
cetin.m
▴ 50
3
votes
1
reply
821
views
Can someone provide me with vcf files with X and Y chromosomes? (Human)
vcf
sex chr
updated 5.1 years ago by
Kevin Blighe
88k • written 5.1 years ago by
cetin.m
▴ 50
0
votes
0
replies
1.3k
views
Comment:
C: GATK multi sample variant calling
5.3 years ago by
cetin.m
▴ 50
1
vote
2
replies
1.3k
views
GATK multi sample variant calling
gatk
SNP
variant calling
5.3 years ago by
cetin.m
▴ 50
2
votes
1
reply
1.7k
views
ANGSD vs GATK for genotype likelihoods
angsd
gatk
genotype likelihoods
5.5 years ago by
cetin.m
▴ 50
0
votes
0
replies
814
views
Relatedness: Calculating k0, k1 and k2
relatedness
5.7 years ago by
cetin.m
▴ 50
1
vote
1
reply
1.7k
views
How to calculate IBD
IBD
updated 5.8 years ago by
Charles Warden
8.3k • written 5.8 years ago by
cetin.m
▴ 50
0
votes
2
replies
992
views
Can't determine any relatedness using lcMLkin
lcmlkin
updated 5.8 years ago by
Santosh Anand
5.8k • written 5.8 years ago by
cetin.m
▴ 50
0
votes
0
replies
820
views
IBD probablity for each Genotype pair
relatedness
lcmlkin
5.8 years ago by
cetin.m
▴ 50
0
votes
3
replies
2.3k
views
Beagle 4.1 imputation
imputation
updated 5.9 years ago by
Biostar
20 • written 5.9 years ago by
cetin.m
▴ 50
0
votes
0
replies
869
views
Beagle permanent file
beagle
imputation
5.9 years ago by
cetin.m
▴ 50
0
votes
1
reply
2.3k
views
Comment:
C: Beagle 4.1 imputation
5.9 years ago by
cetin.m
▴ 50
2
votes
1
reply
1.2k
views
bcftools 1.4.1 call parameters
bcftools
SNP
call
updated 5.9 years ago by
finswimmer
16k • written 5.9 years ago by
cetin.m
▴ 50
0
votes
2
replies
2.0k
views
Answer:
A: Fst calculation between my own population and 1000 genome populations
5.9 years ago by
cetin.m
▴ 50
3
votes
4
replies
935
views
Choice of ref. Genomes
genome
SNP
updated 5.9 years ago by
igor
13k • written 5.9 years ago by
cetin.m
▴ 50
0
votes
1
reply
935
views
Comment:
C: Choice of ref. Genomes
5.9 years ago by
cetin.m
▴ 50
0
votes
0
replies
2.1k
views
Comment:
C: Finding and changing a given position in hg19 ref fasta file
5.9 years ago by
cetin.m
▴ 50
3
votes
5
replies
2.1k
views
Finding and changing a given position in hg19 ref fasta file
hg19
fasta
reference
5.9 years ago by
cetin.m
▴ 50
4
votes
2
replies
4.5k
views
Full genome phyloP scores from UCSC Browser
ucsc
database
updated 5.9 years ago by
cmdcolin
★ 4.0k • written 5.9 years ago by
cetin.m
▴ 50
0
votes
1
reply
2.1k
views
Samtools mpileup genotype likelihood no PL field when all individuals are 0/0
samtools
PL
mpileup
updated 6.1 years ago by
Santosh Anand
5.8k • written 6.1 years ago by
cetin.m
▴ 50
0
votes
0
replies
2.1k
views
Comment:
C: Understanding a VCF - Genotype likelihoods and genotype call
6.4 years ago by
cetin.m
▴ 50
0
votes
2
replies
2.1k
views
Understanding a VCF - Genotype likelihoods and genotype call
sequence
sequencing
next-gen
6.4 years ago by
cetin.m
▴ 50
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