Computes a consensus sequence with wobbles, ambiguous bases, and in-frame insertions, from a NGS read alignment.
- Required By
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install consensusfixer
and update with:
conda update consensusfixer
or use the docker container:
docker pull quay.io/biocontainers/consensusfixer:<tag>
(see consensusfixer/tags for valid values for
ConsensusFixer is Java program that comes with a custom wrapper shell script. This shell wrapper is called "ConsensusFixer" and is on $PATH by default. By default "-Xms512m -Xmx1g" is set in the wrapper. If you want to overwrite it you can specify these values directly after your binaries. If you have _JAVA_OPTIONS set globally this will take precedence. For example run it with "ConsensusFixer -Xms512m -Xmx1G"