Data

Chinese Spring WGS vs IWGSC RefSeq v1.0 Genome Assembly

Adelaide University
Watson-Haigh, Nathan ; Watson-Haigh, Nathan ; Suchecki, Radoslaw ; de Oliveira Santos Garcia, Melissa ; Kalashyan, Elena ; Baumann, Ute
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ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.25909/5b44a2cd609c7&rft.title=Chinese Spring WGS vs IWGSC RefSeq v1.0 Genome Assembly&rft.identifier=10.25909/5b44a2cd609c7&rft.publisher=The University of Adelaide&rft.description=WGS reads of Chinese Spring (ENA: PRJNA392179) 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&rft.creator=Watson-Haigh, Nathan &rft.creator=Watson-Haigh, Nathan &rft.creator=Suchecki, Radoslaw &rft.creator=de Oliveira Santos Garcia, Melissa &rft.creator=Kalashyan, Elena &rft.creator=Baumann, Ute &rft.edition=1&rft_rights= https://creativecommons.org/licenses/by/4.0/&rft_subject=Bioinformatics and computational biology not elsewhere classified&rft_subject=Applications in life sciences&rft_subject=BAM&rft_subject=VCF&rft_subject=bigWig&rft_subject=wheat&rft_subject=Chinese Spring&rft_subject=Bioinformatics Software&rft_subject=Bioinformatics&rft.type=dataset&rft.language=English Access the data
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Full description

WGS reads of Chinese Spring (ENA: PRJNA392179) 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.

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Subjects
Applications in life sciences | BAM | Bioinformatics | Bioinformatics Software | Bioinformatics and computational biology not elsewhere classified | Chinese Spring | VCF | bigWig | wheat |

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Identifiers
ACN 633 798 857