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Required files format
Louis-Mael Gueguen edited this page Oct 10, 2024
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The file must be tab-separated, with controls first:
control1: /path/to/control1_read1.fastq ; /path/to/control1_read2.fastq
control2: /path/to/control2_read1.fastq ; /path/to/control2_read2.fastq
control3: /path/to/control3_SE.fastq
case1: /path/to/case1_read1.fastq ; /path/to/case1_read2.fastq
case2: /path/to/case2_read1.fastq ; /path/to/case2_read2.fastq
case3: path/to/case3_SE.fastq
It can contain single-ends as well as paired-ends.
In this config file, you can change several parameters:
- the number of
threads
- minimum size of unitigs analysed to predict genes.
- max memory used by Bcalm2 (in Mo)
You can also change the names of the conditions you experiment with for the run:
condition:
- acne
- healthy
Or change the paths, were the databases are and were the results will be. ❗ It is important that you give absolute paths and use double quotes "
❗.