qiime2 学习 三篇例文的数据输入总结(开始到样品拆分之前）

1、“Moving Pictures” tutorial（单端）

1.1、Obtain data files

mkdir qiime2-moving-pictures-tutorial

cd qiime2-moving-pictures-tutorial

1.2、Sample metadata

wget \
  -O "sample-metadata.tsv" \
  "https://data.qiime2.org/2019.4/tutorials/moving-pictures/sample_metadata.tsv"

1.3、Obtaining and importing data

mkdir emp-single-end-sequences

wget \
  -O "emp-single-end-sequences/barcodes.fastq.gz" \
  "https://data.qiime2.org/2019.4/tutorials/moving-pictures/emp-single-end-sequences/barcodes.fastq.gz"

wget \
  -O "emp-single-end-sequences/sequences.fastq.gz" \
  "https://data.qiime2.org/2019.4/tutorials/moving-pictures/emp-single-end-sequences/sequences.fastq.gz"

qiime tools import \
  --type EMPSingleEndSequences \
  --input-path emp-single-end-sequences \
  --output-path emp-single-end-sequences.qza

2、Fecal microbiota transplant (FMT) study: an exercise

2.1、obtain data files

mkdir qiime2-fmt-tutorial

cd qiime2-fmt-tutorial

2.2、Sample metadata

wget \
  -O "sample-metadata.tsv" \
  "https://data.qiime2.org/2019.4/tutorials/fmt/sample_metadata.tsv"

2.3、Obtaining and importing data

wget \
  -O "fmt-tutorial-demux-1.qza" \
  "https://data.qiime2.org/2019.4/tutorials/fmt/fmt-tutorial-demux-1-10p.qza"

wget \
  -O "fmt-tutorial-demux-2.qza" \
  "https://data.qiime2.org/2019.4/tutorials/fmt/fmt-tutorial-demux-2-10p.qza"

3、"Atacama soil microbiome" tutorial （双端）

3.1、Obtain the data

mkdir qiime2-atacama-tutorial
cd qiime2-atacama-tutorial

3.2、Sample metadata

wget \
  -O "sample-metadata.tsv" \
  "https://data.qiime2.org/2019.4/tutorials/atacama-soils/sample_metadata.tsv"

3.3、Obtaining and importing data

wget \
  -O "emp-paired-end-sequences/forward.fastq.gz" \
  "https://data.qiime2.org/2019.4/tutorials/atacama-soils/10p/forward.fastq.gz"

wget \
  -O "emp-paired-end-sequences/reverse.fastq.gz" \
  "https://data.qiime2.org/2019.4/tutorials/atacama-soils/10p/reverse.fastq.gz"

wget \
  -O "emp-paired-end-sequences/barcodes.fastq.gz" \
  "https://data.qiime2.org/2019.4/tutorials/atacama-soils/10p/barcodes.fastq.gz"

qiime tools import \
   --type EMPPairedEndSequences \
   --input-path emp-paired-end-sequences \
   --output-path emp-paired-end-sequences.qza