10.4225/55/5a76e1a1b5dda
Nathan Watson-Haigh
Nathan
Watson-Haigh
Radoslaw Suchecki
Radoslaw
Suchecki
Melissa de Oliveira Santos Garcia
Melissa
de Oliveira Santos Garcia
Elena Kalashyan
Elena
Kalashyan
Ute Baumann
Ute
Baumann
Yitpi WGS vs IWGSC RefSeq v1.0 Genome Assembly
The University of Adelaide
2018
BAM
VCF
bigWig
wheat
Yitpi
IWGSC
Bioinformatics Software
Bioinformatics
Genomics
2018-07-10 12:52:26
Dataset
https://adelaide.figshare.com/articles/dataset/Yitpi_WGS_vs_IWGSC_RefSeq_v1_0_Genome_Assembly/5848389
WGS reads of Yitpi (http://dx.doi.org/10.1111/j.1467-7652.2012.00717.x) were aligned against the IWGSC <i>Triticum aestivum</i> 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.