genome-assembly-pacbiohifi-apptainer

• apptainer for the genome assembly coming from the pacbiohifi reads.

• it includes two genome assembler and one is hifiasm and the other is verkko.

• The benchmark for the assembly for these assemblers are located at my another repository genomeasembly-pacbiohifi

• to invoke the hifiasm apptainer

module load singularity
apptainer run hifiasm.sif hifiasm

• to build and invoke the verkko conda based apptainer. I wrote the verkko yaml so that you can directly import and run with in the apptainer.

module load singularity 
apptainer build verkko.sif verkko.def 
echo ".opt/conda/etc/profile.d/conda.sh" >> $ENV_PATH

• inspect the images after the build

for i in *.sif; do apptainer inspect ${i}; done
``

Gaurav Sablok