Wozniak_2022

The "Wozniak_2022_VOC_Data.zip" dataset contains chromatographs of volatile organic compounds (VOC) emitted by different Capsella genotypes. VOCs were analyzed by the headspace solid phase microextraction (HS-SPME) and gas chromatography coupled with electron impact ionization/quadrupole mass spectrometry (GC-EI-MS). It also includes Supplemental Data1, which shows the average responses per individual of all mass features observed after non-targeted profiling of the volatile organic compounds. In this table, blank values for each mass fragment were substracted and the response was stadardized to the number of open flowers. 
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In the PiNPiS_scripts folder are scripts for computing PiNPiS for every gene in the genome from standard sequencing files (  Available also on github https://github.com/kevinfrsartori/Whole_Genome_PiNPiS)

<strong>Required data:</strong>
-for the genetic reference: the CDS ".cds.fa", the gff ".gene.gff3", the protein "protein.fa".<br>
-for the variants: a VCF file ".vcf".
<strong>Procedure:</strong>
Follow the 0-Steps_PiNPiS text file.
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"Wozniak_2022_VOC_Data.zip"数据集收录了不同荠属（Capsella）基因型释放的挥发性有机物（volatile organic compounds, VOC）色谱图。所有挥发性有机物均通过顶空固相微萃取（headspace solid phase microextraction, HS-SPME）结合气相色谱-电子轰击电离/四极杆质谱联用（gas chromatography coupled with electron impact ionization/quadrupole mass spectrometry, GC-EI-MS）完成分析。该数据集附带补充数据1，其中展示了对挥发性有机物进行非靶向表征分析后，观测到的全部质谱特征的单个样本平均响应值。此表格中已扣除各质量片段的空白对照值，并将响应值标准化至开放花朵数量。
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PiNPiS_scripts文件夹内包含用于从标准测序文件中计算全基因组各基因PiNPiS值的脚本（该脚本亦可通过GitHub平台https://github.com/kevinfrsartori/Whole_Genome_PiNPiS获取）
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<strong>所需数据：</strong>
- 遗传参考数据：编码序列（Coding Sequence, CDS）文件".cds.fa"、基因结构注释文件".gene.gff3"、蛋白质序列文件"protein.fa"。<br>
- 变异数据：VCF格式变异文件".vcf"。
<strong>操作流程：</strong>
请严格遵循0-Steps_PiNPiS文本文件中的步骤执行。