how to install conda bcftools +fill-tags plugin ?

Question

[Daniel]

Hi,

I am very new to bioinformatics but I wanted to know is there a way to install bcftools +fill-tags plugin in conda env. Please consider that when I check my env there is not a bcftools folder and subsequently the plugin folder as instructed in the GitHub?

Any help is highly appreciated.

Thanks

[MSRS]

Conda command here.

conda create --name myenv  
conda activate myenv
conda install -c bioconda bcftools

[Daniel]

Thanks, I knew this and had been done! If you look at the question it says plugin more specifically +fill-tags. Any idea on that!

Answer 1

[LChart]

Just poked around this myself, putting an answer for posterity. When installing from conda, the bcftools plugins are in $CONDA_PATH/envs/$ENV/libexec/bcftools so for me

BCFTOOLS_PLUGINS="${HOME}/miniconda3/envs/pysam/libexec/bcftools" bcftools plugin dosage

works like a charm.