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1. HaplotypeMiner HaplotypeMiner Public

   Gene-centered haplotyping from SNP data

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2. katcher katcher Public

   Extract aligned reads containing a set of k-mers

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3. soybean_sv_paper soybean_sv_paper Public

   Structural variation analysis in soybean using Oxford Nanopore and Illumina sequencing data

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4. gwask gwask Public

   Utilities to work with GWAS results from GAPIT and k-mers GWAS

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5. soybean_kmer_gwas soybean_kmer_gwas Public

   Code used for "k-mer-based GWAS enhances the discovery of causal variants and candidate genes in soybean"

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6. kmers_ld kmers_ld Public

   Compute pairwise LD from presence/absence of k-mers

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