TY - DATA T1 - Wyalkatchem WGS vs IWGSC RefSeq v1.0 Genome Assembly PY - 2018/07/10 AU - Nathan Watson-Haigh AU - Radoslaw Suchecki AU - Melissa de Oliveira Santos Garcia AU - Elena Kalashyan AU - Ute Baumann UR - https://adelaide.figshare.com/articles/dataset/Wyalkatchem_WGS_vs_IWGSC_RefSeq_v1_0_Genome_Assembly/5848386 DO - 10.4225/55/5a76e293ee0fc L4 - https://ndownloader.figshare.com/files/12292973 L4 - https://ndownloader.figshare.com/files/12292883 L4 - https://ndownloader.figshare.com/files/12292877 L4 - https://ndownloader.figshare.com/files/12292874 L4 - https://ndownloader.figshare.com/files/12292871 L4 - https://ndownloader.figshare.com/files/12292868 L4 - https://ndownloader.figshare.com/files/12292862 L4 - https://ndownloader.figshare.com/files/12292859 L4 - https://ndownloader.figshare.com/files/12292856 L4 - https://ndownloader.figshare.com/files/12292853 L4 - https://ndownloader.figshare.com/files/12292850 L4 - https://ndownloader.figshare.com/files/12292847 L4 - https://ndownloader.figshare.com/files/12292844 L4 - 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https://ndownloader.figshare.com/files/10380540 KW - BAM KW - VCF KW - bigWig KW - wheat KW - Wyalkatchem KW - IWGSC KW - Bioinformatics Software KW - Bioinformatics KW - Genomics N2 - WGS reads of Wyalkatchem (http://dx.doi.org/10.1111/j.1467-7652.2012.00717.x) were aligned against the IWGSC Triticum aestivum Chinese Spring RefSeq v1.0 genome assembly using Minimap2. These BAM files (.bam) and index files (.bam.bai) are provided together with a summary of read alignment coverage bigWig files (.bam.bw). SNP variants were called from these BAM files to generate VCF files (.bam.vcf.gz) and index files (.bam.vcf.gz.tbi) and are provided together with a summary of SNP density (SNPs per 10 kbp) bigWig files (.bam.vcf.w10000_s10000.bw). VCF files contain the following filter values and corresponding meaning: PASS = high quality (Q>=30) homozygous; Het = high quality (Q>=30) heterozygous; LowQualHom = low quality (Q<30) homozygous; LowQualHet = low quality (Q<30) heterozygous. Files are provided separately for each chromosome part. ER -