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Variant calling: Sambama sort command not found

Hi everyone!

However, I previosly installed sambamba (https://github.com/biod/sambamba), the terminal can't find sambamba commads. I looked after the problem, but it is still unsolved (if it matters, I try reproduce this tutorial: https://github.com/ekg/alignment-and-variant-calling-tutorial). Can anyone help me with that?

snp alignment
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updated by Martina • Martina • written by cseplomarton • cseplomarton

1 answer

Hello, I can highly recommend to use anaconda package manager. https://www.anaconda.com/distribution/ Check the virtual environment managing tutorial, its super easy and cool and practical. https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html

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written by Martina • Martina

Thank you too! I seen this "anaconda" earlier and it seems very useful.

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written by cseplomarton • cseplomarton

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