# Get input data (paired-end reads) wget -nv https://github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R1.fastq.gz -O R1.fastq.gz wget -nv https://github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R2.fastq.gz -O R2.fastq.gz # Define a sensible...
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All down-samplings were performed on the FASTQ files using seqkt (-s42, v1.3-r106). Full-length scRNA-seq postprocessing The resulting data were parsed using R (v4.1.0). Downstream data exploration of the gene counts was performed using Seurat26(v4.0.3). Generally, only cells with >50...
上传数据 NGS流程中需使用二代测序得到的原始fastq文件、参考基因组序列、参考Variants数据集。 本示例中以Windows系统命令行工具为例,介绍如何将本地数据上传到EIHealth平台。更多的命令介绍请参见命令行工具。 使用命令行工具,用switch命令进入待操作的项目。
文本上传 开发过程中,您有任何问题可以在github上提交issue,或者在华为云 对象存储服务 论坛中发帖求助。接口参考文档详细介绍了每个接口的参数和使用方法。 文本上传用于直接上传字符串。您可以通过ObsClient.putObject直接上传字符串到OBS。以下代码展示了如何进行文本上传: 来自:帮助中心 查看更多 → 上传插件 上...
https://github.com/dstreett/FLASH2 git clone https://github.com/dstreett/FLASH2.git cd FLASH2 & make 然后可直接运行FLASH2文件夹里的flash2就可以运行。 flash2 -h 运行示例: flash2 sim_1.fastq sim_2.fq[FLASH]StartingFLASHv2.2.00[FLASH]FastLengthAdjustmentofSHortreads[FLASH][FLASH]Inputfiles...
flash--min-overlap10--max-mismatch-density0.25-t6R1.fastqR2.fastq--output-prefix=Flash--output-directory=./flash>flash.log flash程序的参数都比较简单,个别参数比较重要;大家自己去理解一下。 #4. 参考 FLASH: Fast length adjustment of short reads to improve genome assemblies.T. Magoc and S. Sal...
//github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R1.fastq.gz -O R1.fastq.gz wget -nv https://github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R2.fastq.gz -O R2.fastq.gz # Run program flash \ R1.fastq.gz R2.fastq.gz \ --min-overlap=100 \...
//github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R1.fastq.gz -O R1.fastq.gz wget -nv https://github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R2.fastq.gz -O R2.fastq.gz # Run program flash \ R1.fastq.gz R2.fastq.gz \ --min-overlap=100 \...
//github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R1.fastq.gz -O R1.fastq.gz wget -nv https://github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R2.fastq.gz -O R2.fastq.gz # Run program flash \ R1.fastq.gz R2.fastq.gz \ --min-overlap=100 \...