Hi All, Who can share a script to calculate RVIS (Residual Variation Intolerance Score). Petrovski S., Wang Q., Heinzen E.L., Allen A.S., Goldstein D.B. (2013). …

Hi All, Who can share an annotation file for the latest version of ancestral alleles for dbSNP152 or dbSNP153 Thanks.

Hi All, Who can share a script to download human gene fasta/sequences for FGF1, FGF2, FGF3, FGF4, FGF5, FGF6 and FGF7 at the same time? …

Hi All, Who can share a script to transfer mutation VCF files to 3-base mutation pattern: Bekow is the output i want to obtain. I …

Hi All, Who can share a perl/python script to transfer phased vcf to phased tped? Thanks. ------------------------------------------ Update: `plink` will re-order the alleles therefore 'phase' …

Hi All, Is there any script which can be used for `bedtools shuffle` and can be applied to ‘GC' ratio control/adjustment ? I want to …

Hi colleagues, Just very simple question. When we calculate LD, we need P(A),P(a),P(B),P(b) and then D=P(AB)-P(A)P(B) r=P(AB)-P(A)P(B)/sqrt(P(A)P(a)P(B)P(b)) However, for raw SNPs or mutation, P(A) or …

Hi All, haploview only can plot LD for SNP data (biallelic markers). Genetic variations with greater than two alleles (e.g. microsatellites) will not work correctly. …

Hi All, I was asked to calculate the correlation (Pearson) of the methylation between the adjacent CpGs with the reads from the BAM files (BS-seq). …

Hi All, I guess lot of you would like to use *fastqc* to check the fastq/bam/sam files after you get the data. However, sometime, we …