Training data for 'Genome annotation with Funannotate' tutorial (Galaxy Training Material)

The data provided here are part of a Galaxy Training Network tutorial for genome annotation with funannotate. Genome was assembled following the GTN Flye assembly tutorial, then masked with RepeatMasker. RNASeq data: SRR8534859 reads were mapped to the genome using STAR (toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.7.8a+galaxy0), then the bam was downsampled (10% with toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_DownsampleSam/2.18.2.1) to reduce the size of the dataset. Fastq files were then extracted from the resulting bam file (toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.1). SwissProt_subset.fasta is a subset of SwissProt proteins that are known to have some similarity with the genome (found using Diamond against the genome, then extracting sequences matching with e-value < 0.0001).本数据集为使用funannotate进行基因组功能注释的Galaxy训练网络（Galaxy Training Network, GTN）教程的一部分。该基因组按照GTN Flye组装教程完成组装，随后通过RepeatMasker进行重复序列屏蔽。RNA测序（RNA-seq）数据部分：使用STAR（工具地址：toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.7.8a+galaxy0）将SRR8534859的测序读段比对至参考基因组，随后通过Picard的DownsampleSam工具（工具地址：toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_DownsampleSam/2.18.2.1）将BAM（二进制比对映射）格式比对文件按10%比例进行下采样以缩减数据集规模。随后从处理后的BAM文件中提取得到FASTQ格式文件，提取工具为Picard的SamToFastq（工具地址：toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.1）。SwissProt_subset.fasta为SwissProt蛋白质数据库的子集，其中收录了与该基因组存在一定序列相似性的蛋白质序列：通过Diamond序列比对工具对基因组进行比对后，提取出E-value（期望值）小于0.0001的匹配序列。