Perform sequence assembly on Illumina HiSeq data for human simplex virus.
- Install all dependencies as specified in
dependencies.txt
. - Place .bam files in
input/
directory. Sort .bam files and name as .sorted.bam files. Index .sorted.bam files. - Place .fastq files in
fastq/
directory, if available.
./run.sh
The assembly algorithms can create huge intermediate files totalling >100 GB.