Installing Miniconda and basic conda usage

Here I show how to install Miniconda using a linux terminal. This method works on remote machines.

Conda is one of the most useful environment and package managers for bioinformatics and data analysis. It allows you to make environments specific to projects and it allows you to easily install and uninstall analysis software and their dependencies.

I also give an example of how to make a new conda environment and install the STAR aligner.

[sanbomics]

With miniconda updates there may be two small changes. 1) you may have to run the .sh with shell instead of sh and 2) you may have to specify python=<version> when you create a new environment

[mohamedelmoussaoui]

Hi, could you upload a roadmap video for bioinformatics. like the tools you need to learn, what task bioinformatician perform ( e.g genome assembly and rna seq analysis), project you can do to improve your cv, for someone like me who is a student in bioinformatics and genomics, it would be very helpful.

[gvxjffq]

Thanks for this kindness lecture. I was wondering if this bioconda packages doesn't work in apple M1 silicon Macs.. Bioconda doesn't works at arch "packages are nor available from current channels"

[elu]

Thanks for the video series. I just discover this channel. Can't wait to learn. I am a lab biologist. I am insterested in learning more about omics. Do I need a dedicated server for the purpose. My current computer with anaconda is a mess in terms of virtual environments...

[JosephAM]

Do I have to directly run it on linux?
Can I not install the windows version and run it through the linux subsystem installen on my windows operative system?
Or do I have to install the Linux version for my linux subsystem since i am not running linux ?

[oksanaofeliahuertareyes]

When I finish installing miniconda3 I get this message: "ERROR: File or directory already exists: '/home/jamir/miniconda3'
If you want to update an existing installation, use the -u option." What could I do?

[paulmoss]

Hello, I am trying to install miniconda in Windows 10, but it fails with the message "Failed to initialize Anaconda directories". I do have Python 3.10 and Pycharm installed already. please can you suggest a solution? thank you