iva_qc

iterative virus sequence assembler

Install

All systems
curl cmd.cat/iva_qc.sh
Debian Debian
apt-get install iva
Ubuntu
apt-get install iva
image/svg+xml Kali Linux
apt-get install iva
Windows (WSL2)
sudo apt-get update sudo apt-get install iva
Raspbian
apt-get install iva

iva

iterative virus sequence assembler

IVA is a de novo assembler designed to assemble virus genomes that have no repeat sequences, using Illumina read pairs sequenced from mixed populations at extremely high depth. IVA's main algorithm works by iteratively extending contigs using aligned read pairs. Its input can be just read pairs, or additionally you can provide an existing set of contigs to be extended. Alternatively, it can take reads together with a reference sequence.