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Comment: C: How to do a multi-snp/haplotype based GWAS instead of a single snp GWAS in R?
3.5 years ago by curious ▴ 750
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1.7k
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Comment: C: bcftools subset by ids stored in a unix variable
3.5 years ago by curious ▴ 750
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729
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Comment: C: Why are structural variants typically not tagged as well as SNPs?
3.6 years ago by curious ▴ 750
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729
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Comment: C: Why are structural variants typically not tagged as well as SNPs?
3.6 years ago by curious ▴ 750
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2.9k
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Comment: C: How to do a Haplotype based GWAS?
3.6 years ago by curious ▴ 750
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2.6k
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Comment: C: Allele frequency calculation for genotype dosage value
3.6 years ago by curious ▴ 750
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3.5k
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Comment: C: Switch ref/alt alleles vcf file
3.7 years ago by curious ▴ 750
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1
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4.3k
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Comment: C: B allele frequency (BAF)
3.7 years ago by curious ▴ 750
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1.6k
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Comment: C: What is the current standard for HLA allele typing prediction from SNP data?
3.7 years ago by curious ▴ 750
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2.7k
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Comment: C: Post-imputation QC GWAS analysis
3.7 years ago by curious ▴ 750
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1.3k
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Comment: C: Where does the 'simpleRepeat.txt' file from http://hgdownload.cse.ucsc.edu/golde
3.7 years ago by curious ▴ 750
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1.3k
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Comment: C: Where does the 'simpleRepeat.txt' file from http://hgdownload.cse.ucsc.edu/golde
3.7 years ago by curious ▴ 750
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1
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676
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Comment: C: Refrence datasets for imputation
3.7 years ago by curious ▴ 750
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1
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936
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Comment: C: Can variant callers distinguish between a snp and the end of an indel?
3.7 years ago by curious ▴ 750
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1
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936
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Comment: C: Can variant callers distinguish between a snp and the end of an indel?
3.7 years ago by curious ▴ 750
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936
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Comment: C: Can variant callers distinguish between a snp and the end of an indel?
3.7 years ago by curious ▴ 750
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2.3k
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Comment: C: Differentially expressed genes machine learning classifer
3.7 years ago by curious ▴ 750
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2.3k
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Comment: C: Differentially expressed genes machine learning classifer
3.7 years ago by curious ▴ 750
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1.2k
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Comment: C: Is GWAS genotype QC to exclude samples with inbreeding coefficient typically app
3.7 years ago by curious ▴ 750
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987
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Comment: C: Selection of SNPs after imputation
3.8 years ago by curious ▴ 750
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926
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Comment: C: online link for SNP genotype frequency calculations
3.8 years ago by curious ▴ 750
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967
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Comment: C: Simulating whole gene deletions for tuning a WES based CNV calling approach?
3.9 years ago by curious ▴ 750
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768
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Comment: C: Best practice for finding all genes SNPs, etc. related to a disease or phenotype
3.9 years ago by curious ▴ 750
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3.9k
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Comment: C: Info Score > 1 Plink?
3.9 years ago by curious ▴ 750
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1
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2.0k
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Comment: C: Imputation output from TOPMED server
3.9 years ago by curious ▴ 750
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880
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Comment: C: Setting major allele in plink to plus strand of reference?
3.9 years ago by curious ▴ 750
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3.7k
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Comment: C: Possible to add `chr` prefix to each chromosome in PLINK?
3.9 years ago by curious ▴ 750
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1.8k
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Comment: C: How to add a flag to the INFO column of a vcf with pysam?
3.9 years ago by curious ▴ 750
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1.1k
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Comment: C: Extracting strings from the fasta header
3.9 years ago by curious ▴ 750
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2.6k
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Comment: C: Is there any way to make samtools tabix go faster?
3.9 years ago by curious ▴ 750
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1
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6.2k
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Comment: C: speed up bcftools annotate command
3.9 years ago by curious ▴ 750
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1
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6.2k
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Comment: C: speed up bcftools annotate command
3.9 years ago by curious ▴ 750
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1.9k
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Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
3.9 years ago by curious ▴ 750
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5.9k
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Comment: C: bcftools view -r seems to be getting sites outside of the region I designate?
3.9 years ago by curious ▴ 750
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1.9k
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Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
3.9 years ago by curious ▴ 750
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1
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1.9k
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Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
3.9 years ago by curious ▴ 750
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1
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1.9k
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Comment: C: Fastest was to sort a 340 gb BCF by chromosome and position?
3.9 years ago by curious ▴ 750
1
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1.9k
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Comment: C: Fastest was to sort a BCF by chromosome and position?
4.0 years ago by curious ▴ 750
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1.1k
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Comment: C: Can someone provide an example of the typical output of Illumina's Global Divers
4.0 years ago by curious ▴ 750
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1
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863
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Comment: C: Fastest way to switch out sites on one BCF for sites in another BCF?
4.0 years ago by curious ▴ 750
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5.9k
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Comment: C: sorting a multi-sample (genotype) vcf file
4.0 years ago by curious ▴ 750
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2.4k
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Comment: C: Speed of merging multiple bcfs with bcftools compared to PLINK?
4.0 years ago by curious ▴ 750
1
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1.6k
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Comment: C: Doing an operation on one huge VCF, use Python or would C be faster (somewhat ni
4.0 years ago by curious ▴ 750
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0
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4.4k
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Comment: C: Flipping every REF/ALT and corresponsing genotypes of every single indel in a VC
4.0 years ago by curious ▴ 750
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1
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4.4k
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Comment: C: Flipping every REF/ALT and corresponsing genotypes of every single indel in a VC
4.0 years ago by curious ▴ 750
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0
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7.2k
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Comment: C: Cannot install snpStats packages
4.0 years ago by curious ▴ 750
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1
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808
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Comment: C: Using bcftools merge on the output of multiple process substitution? (somewhat a
4.0 years ago by curious ▴ 750
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1
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1.6k
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Comment: C: Doing an operation on one huge VCF, use Python or would C be faster (somewhat ni
4.0 years ago by curious ▴ 750
2
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1
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1.6k
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Comment: C: What is the current standard for HLA allele typing prediction from SNP data?
4.0 years ago by curious ▴ 750
1
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0
replies
2.5k
views
Comment: C: Michigan imputation server quality control failed
4.0 years ago by curious ▴ 750
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