Comments (2)
You should configure workflow as described here: https://github.com/dbespiatykh/RDscan/tree/master/config.
In short, you need to add your samples to RDscan/config/samples.tsv
like so:
Run_accession | R1 | R2 |
---|---|---|
your_sample_A | /path/to/your_sample_A_1.fastq.gz | /path/to/your_sample_A_2.fastq.gz |
your_sample_B | /path/to/your_sample_B_2.fastq.gz | /path/to/your_sample_B_2.fastq.gz |
Then you need to run the command you mentioned (inside RDscan directory).
Alternatively, you can use this command (to omit mamba
): snakemake --cores all --use-conda
.
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