Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
0
votes
0
replies
1.3k
views
Comment: C: Is GWAS genotype QC to exclude samples with inbreeding coefficient typically app
4.3 years ago by curious ▴ 820
0
votes
0
replies
1.1k
views
Comment: C: Selection of SNPs after imputation
4.4 years ago by curious ▴ 820
0
votes
0
replies
1.0k
views
Comment: C: online link for SNP genotype frequency calculations
4.4 years ago by curious ▴ 820
0
votes
0
replies
860
views
Lifting over results in coordinates that do not agree with what the rsid suggests the coordinates should be?
liftover hla
4.4 years ago by curious ▴ 820
1
vote
5
replies
2.7k
views
filter VCF based on info field that has a key but no value
bcftools vcf
updated 4.4 years ago by • 0 • written 4.9 years ago by ▴ 820
0
votes
0
replies
1.4k
views
How does imputation software calculate haploid alternate allele dosage from posterior probabilities for genotypes?
impuation
4.4 years ago by curious ▴ 820
0
votes
0
replies
1.1k
views
Comment: C: Simulating whole gene deletions for tuning a WES based CNV calling approach?
4.4 years ago by curious ▴ 820
0
votes
2
replies
1.1k
views
Simulating whole gene deletions for tuning a WES based CNV calling approach?
WES
4.4 years ago by curious ▴ 820
0
votes
0
replies
881
views
Comment: C: Best practice for finding all genes SNPs, etc. related to a disease or phenotype
4.5 years ago by curious ▴ 820
0
votes
0
replies
4.3k
views
Comment: C: Info Score > 1 Plink?
4.5 years ago by curious ▴ 820
0
votes
0
replies
1.0k
views
Lifting over and harmonizing a plink file so major allele is forward on hg19?
plink strand liftover
4.5 years ago by curious ▴ 820
1
vote
1
reply
2.2k
views
Comment: C: Imputation output from TOPMED server
4.5 years ago by curious ▴ 820
0
votes
0
replies
668
views
Using only non-reference homozygous sites to evaluate SNP array concordance?
snp array
4.5 years ago by curious ▴ 820
0
votes
0
replies
984
views
Comment: C: Setting major allele in plink to plus strand of reference?
4.5 years ago by curious ▴ 820
0
votes
2
replies
984
views
Setting major allele in plink to plus strand of reference?
plink
4.5 years ago by curious ▴ 820
0
votes
0
replies
4.5k
views
Comment: C: Possible to add `chr` prefix to each chromosome in PLINK?
4.5 years ago by curious ▴ 820
3
votes
2
replies
4.5k
views
Possible to add `chr` prefix to each chromosome in PLINK?
plink
updated 4.5 years ago by 11k • written 4.5 years ago by ▴ 820
0
votes
0
replies
2.0k
views
Comment: C: How to add a flag to the INFO column of a vcf with pysam?
4.5 years ago by curious ▴ 820
0
votes
1
reply
2.0k
views
How to add a flag to the INFO column of a vcf with pysam?
bcf vcf pysam
4.5 years ago by curious ▴ 820
0
votes
0
replies
1.3k
views
Comment: C: Extracting strings from the fasta header
4.5 years ago by curious ▴ 820
0
votes
0
replies
2.9k
views
Comment: C: Is there any way to make samtools tabix go faster?
4.5 years ago by curious ▴ 820
0
votes
2
replies
2.9k
views
Is there any way to make samtools tabix go faster?
tabix vcf bcf samtools
4.5 years ago by curious ▴ 820
0
votes
1
reply
6.8k
views
Comment: C: speed up bcftools annotate command
4.5 years ago by curious ▴ 820
0
votes
1
reply
6.8k
views
Comment: C: speed up bcftools annotate command
4.5 years ago by curious ▴ 820
0
votes
0
replies
2.3k
views
Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
4.5 years ago by curious ▴ 820
3
votes
9
replies
2.3k
views
Fastest was to sort a 340 gb BCF by chromosome and position?
bcf bcftools
4.5 years ago by curious ▴ 820
1
vote
0
replies
7.0k
views
Comment: C: bcftools view -r seems to be getting sites outside of the region I designate?
4.5 years ago by curious ▴ 820
3
votes
2
replies
7.0k
views
bcftools view -r seems to be getting sites outside of the region I designate?
bcftools vcf bcf
updated 4.5 years ago by 44k • written 4.5 years ago by ▴ 820
0
votes
0
replies
2.3k
views
Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
4.5 years ago by curious ▴ 820
0
votes
1
reply
2.3k
views
Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
4.5 years ago by curious ▴ 820
0
votes
1
reply
2.3k
views
Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
4.5 years ago by curious ▴ 820
1
vote
0
replies
2.3k
views
Comment: C: Fastest was to sort a BCF by chromosome and position?
4.5 years ago by curious ▴ 820
0
votes
0
replies
1.2k
views
Comment: C: Can someone provide an example of the typical output of Illumina's Global Divers
4.6 years ago by curious ▴ 820
0
votes
1
reply
976
views
Comment: C: Fastest way to switch out sites on one BCF for sites in another BCF?
4.6 years ago by curious ▴ 820
1
vote
3
replies
976
views
Fastest way to switch out sites on one BCF for sites in another BCF?
bcftools bcf vcf
4.6 years ago by curious ▴ 820
0
votes
0
replies
6.8k
views
Comment: C: sorting a multi-sample (genotype) vcf file
4.6 years ago by curious ▴ 820
0
votes
0
replies
2.7k
views
Comment: C: Speed of merging multiple bcfs with bcftools compared to PLINK?
4.6 years ago by curious ▴ 820
5
votes
2
replies
2.7k
views
Speed of merging multiple bcfs with bcftools compared to PLINK?
bcftools plink
4.6 years ago by curious ▴ 820
1
vote
0
replies
1.9k
views
Comment: C: Doing an operation on one huge VCF, use Python or would C be faster (somewhat ni
4.6 years ago by curious ▴ 820
0
votes
0
replies
5.2k
views
Comment: C: Flipping every REF/ALT and corresponsing genotypes of every single indel in a VC
4.6 years ago by curious ▴ 820
0
votes
1
reply
5.2k
views
Comment: C: Flipping every REF/ALT and corresponsing genotypes of every single indel in a VC
4.6 years ago by curious ▴ 820
3
votes
4
replies
5.2k
views
Flipping every REF/ALT and corresponsing genotypes of every single indel in a VCF.
bcftools oxford plink
4.6 years ago by curious ▴ 820
0
votes
0
replies
7.7k
views
Comment: C: Cannot install snpStats packages
4.6 years ago by curious ▴ 820
0
votes
1
reply
909
views
Comment: C: Using bcftools merge on the output of multiple process substitution? (somewhat a
4.6 years ago by curious ▴ 820
2
votes
3
replies
909
views
Using bcftools merge on the output of multiple process substitution? (somewhat a linux question)
linux
4.6 years ago by curious ▴ 820
0
votes
1
reply
1.9k
views
Comment: C: Doing an operation on one huge VCF, use Python or would C be faster (somewhat ni
4.6 years ago by curious ▴ 820
1
vote
4
replies
1.9k
views
Doing an operation on one huge VCF, use Python or would C be faster (somewhat niave bcftools/computer science question)
python bcftools c vcf
4.6 years ago by curious ▴ 820
2
votes
1
reply
1.8k
views
Comment: C: What is the current standard for HLA allele typing prediction from SNP data?
4.6 years ago by curious ▴ 820
1
vote
0
replies
2.7k
views
Comment: C: Michigan imputation server quality control failed
4.6 years ago by curious ▴ 820
0
votes
0
replies
743
views
Removing rare variants from SNP array before imputation then putting them back in after imputation?
imputation snp array
4.6 years ago by curious ▴ 820
300 results • Page 4 of 6
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6