Data

Pastor WGS vs IWGSC RefSeq v1.0 Genome Assembly

The University of Adelaide
Elena Kalashyan (Aggregated by) Melissa de Oliveira Santos Garcia (Aggregated by) Nathan Spencer Watson-Haigh (Aggregated by) Radoslaw Suchecki (Aggregated by) Ute Baumann (Aggregated by)
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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:doi10.4225/55/5a76e32aeea40&rft.title=Pastor WGS vs IWGSC RefSeq v1.0 Genome Assembly&rft.identifier=https://doi.org/10.4225/55/5a76e32aeea40&rft.publisher=The University of Adelaide&rft.description=WGS reads of Pastor (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&rft.creator=Elena Kalashyan&rft.creator=Melissa de Oliveira Santos Garcia&rft.creator=Nathan Spencer Watson-Haigh&rft.creator=Radoslaw Suchecki&rft.creator=Ute Baumann&rft.date=2023&rft_rights=CC-BY-4.0&rft_subject=BAM&rft_subject=VCF&rft_subject=bigWig&rft_subject=wheat&rft_subject=Pastor&rft_subject=IWGSC&rft_subject=Bioinformatics Software&rft_subject=Bioinformatics&rft_subject=Genomics&rft_subject=Bioinformatics and computational biology not elsewhere classified&rft_subject=Applications in life sciences&rft.type=dataset&rft.language=English Access the data
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WGS reads of Pastor (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.

Issued: 2018-02-04

Created: 2018-07-10

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Applications in life sciences | BAM | Bioinformatics | Bioinformatics Software | Bioinformatics and computational biology not elsewhere classified | Genomics | IWGSC | Pastor | VCF | bigWig | wheat |

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