Page Comparison

Install tools using conda

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Create a conda environment called snifflesONTvariants_mapping

conda create -n ONTvariants_mapping

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Now we are done installing all the tools that we need for today.

Approach #2 (we are not doing this - this just for your information) - installing all tools at once (slower option!)

Prepare the following environment.yml file:

name: ONTvariants_mapping
channels:
  - conda-forge
  - defaults
  - bioconda
dependencies:
  - samtools=1.20
  - minimap=2-2.28

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As you have seen, we can search at anaconda.org for other tools that we might be interested to use.

Remember, if you run into compatibility issues or errors, you can always create a new conda environment for the tool of interest. NOTE: you can switch between conda environements as follows:

conda activate ONTvariants_QC
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conda deactivate
conda activate ONTvariants_mapping
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