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Update wolf_tutorial

Celine Mercier
2019-06-30 14:54:54 +02:00
parent 9732330cf5
commit 42c944bff9
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wolf_tutorial.md

@ -49,15 +49,21 @@ Not working yet...
### 1. Import the sequencing data in a DMS ### 1. Import the sequencing data in a DMS
Download the reads:
[wolf_F.fastq.gz](/uploads/09dada3587189c3b3a7af7024981c074/wolf_F.fastq.gz)
[wolf_R.fastq.gz](/uploads/a95dbad14b75474c8307cab56fa083ca/wolf_R.fastq.gz)
1. Import the first set of reads, with : 1. Import the first set of reads, with :
obi import --quality-solexa wolf_tutorial/wolf_F.fastq wolf/reads1 obi import --quality-solexa wolf_tutorial/wolf_F.fastq.gz wolf/reads1
`--quality-solexa` is the appropriate fastq quality option because it's an old dataset, `wolf_tutorial/wolf_F.fastq` is the path to the file to import, `wolf` is the path to the DMS that will be automatically created, and `reads1` is the name of the view into which the file will be imported. `--quality-solexa` is the appropriate fastq quality option because it's an old dataset, `wolf_tutorial/wolf_F.fastq` is the path to the file to import, `wolf` is the path to the DMS that will be automatically created, and `reads1` is the name of the view into which the file will be imported.
2. Import the second set of reads: 2. Import the second set of reads:
obi import --quality-solexa wolf_tutorial/wolf_R.fastq wolf/reads2 obi import --quality-solexa wolf_tutorial/wolf_R.fastq.gz wolf/reads2
3. Import the [ngsfilter file](https://pythonhosted.org/OBITools/scripts/ngsfilter.html) describing the primers and tags used for each sample: 3. Import the [ngsfilter file](https://pythonhosted.org/OBITools/scripts/ngsfilter.html) describing the primers and tags used for each sample: