A collection of scripts documenting the parameter settings used to apply variant discovery to the exploration of Duodenal Polyposis.
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Updated
Feb 1, 2017 - Perl
A collection of scripts documenting the parameter settings used to apply variant discovery to the exploration of Duodenal Polyposis.
Manhattan plot in VisualBasic
map and call next generation genomic sequencing
Most up-to-date scripts used in the Palumbi lab
Variant calling format (vcf) file genomics pipeline for HPC and cloud
A fast 23andMe genome text file parser, now superseded by arv
Concordance Validation across Experiments
Principal Component Analysis, PCA, Gaussian Markov Random Fields, Graphical model,
Find shared SNPs between different microarray chips
Python script to generate .snp and .ind Eigenstrat files from a PHYLIP infile
Estimate local SNP heritability and genetic covariance from GWAS summary association statistics.
R scripts & functions for SNP data analysis of genotyping data from Affymetrix Axiom arrays
SNP calling pipeline using mccortex
Case-control genetics datasets evolved to be epistatic
A QC pipeline for SVs calls based on coverage and SNP calls
Custom command line utility tools to manipulate vcf files
🔖 Get SNP proxies from the 1000 Genomes Project.
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