Example delta smelt GT-seq dataset for gtseq_microhap

Example paired-end GT-seq dataset for demonstrating the gtseq_microhap Direct microhaplotype genotyping pipeline. The dataset contains paired-end FASTQ files from 96 delta smelt (Hypomesus transpacificus) individuals genotyped with a 410-locus GT-seq panel. Reads were randomly subsampled to 150,000 read pairs per sample to reduce download size whilepreserving locus representation and genotype structure. The dataset now includes scripts for PIC of highestMAF_snps vs microhaps, concordance testing of bwa derived genotypes versus direct microhaplotype genotyping, and read depth versus genotype concordance / call rate. The dataset includes: - dsm_gteseq_microhap_dataset.tgz Subsampled paired-end FASTQ files. - dsm_GTseq410_Primers-notag.csv Primer definition file required by the pipeline. - gtseq_microhap_readme.txt Instructions for running the example dataset. -gtseq_microhap_v0.3.1_validation.tgz scripts and instructions for reproducing method validation results The gtseq_microhap software is available at: https://github.com/GTseq/gtseq_microhap