EOSC-Nordic service preparations (ITSx)
ITSx - stand alone software for detecting and extracting ribosomal ITS sequence regions of fungi and other eukaryotes for use in environmental sequencing (https://microbiology.se/software/itsx/).
- OPTIONAL: Singularity - install Singularity (needed to create new singularity container)
There are 2 options. You can build the singularity container yourself from source code OR you can use our prebuilt one.
Navigate to a prefferred directory/environment where you want to run the software
Run setup bash script (downloads singularity container and creates input and output data directories)
You don't need to these steps if you're using the prebuilt container
Create Singularity Image File (SIF).
sudo singularity build itsx_plutof.sif itsx_plutof.def
Copy SIF to HPC or any other place where you want to run the software
scp itsx_plutof.sif firstname.lastname@example.org:
NB! The script expects input files in FASTA format, named as source_[run_id] and placed in indata/ directory.