Clade assignment, mutation calling, and sequence quality checks. This is the command line version of nextclade.
See versions which are available:
$ module avail nextclade
Load one version into your environment and run it:
$ module load nextclade/2.11.0 $ nextclade
Notes from the sysadmin during installation:
$ sudo mkdir -p /export/apps/nextclade/2.11.0/bin $ sudo wget https://github.com/nextstrain/nextclade/releases/download/2.11.0/nextclade-x86_64-unknown-linux-gnu -O /export/apps/nextclade/2.11.0/bin/nextclade $ sudo chmod +x /export/apps/nextclade/2.11.0/bin/nextclade
Note: nextclade was previously distributed as a Javascript program, but it seems to have been ported to C++ and is now a standalone executable.