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= when you create a new environment
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.
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"
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...
I wouldn't say you needed a dedicated server.. as long as you can run linux on whatever you have (either in VMware or dual boot). AND it has at least 32 GB RAM. You can get away with less RAM if you are handling small datasets and don't plan on doing any of the read alignment yourself. And of course more CPUs is good, but this only dictates how long something takes, not whether you can do something or not. e.g., aligning a whole RNAseq sample using 1 cpu might take 8 hours, but you CAN do it.
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 ?
I don't use windows enough to give you a clear answer. But, I think you will install it through wsl like linux. Expect lots of issues and errors though I am sure.. I think I tried this a couple years ago and gave up. Better to just use virtual box if you really want to stay on windows
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?
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
I'm sorry but I don't know the solution to that specific problem. Miniconda on winows is not nearly as streamlined as on mac/linux. I suggest that if you plan to do a decent amount of data analysis that you switch over to a linux environment.
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= when you create a new environment
Thanks, was a great help.
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.
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"
I just helped someone install it on their M1 macbook air and it seemed to work like normal
By using virtual machines, which do you recommend cause utm seems to be not working at all
@@정현우-e5g 이미 해결되셨을수 있겠지만, 저도 같은 문제가 있었어서 공유해보아요. 저는 "uname -a" 커맨드로 ubuntu virtual machine system details 확인해보았더니 aarch64로 떠서 miniconda 웹사이트에서 "Miniconda3-latest-Linux-aarch64"를 다운받고 bash Miniconda3-latest-Linux-aarch64로 깔았어요. 그 이후에 bioconda configuration은
conda config --add channels bioconda
conda config --add channels conda-forge 로 했습니다.
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...
I wouldn't say you needed a dedicated server.. as long as you can run linux on whatever you have (either in VMware or dual boot). AND it has at least 32 GB RAM. You can get away with less RAM if you are handling small datasets and don't plan on doing any of the read alignment yourself. And of course more CPUs is good, but this only dictates how long something takes, not whether you can do something or not. e.g., aligning a whole RNAseq sample using 1 cpu might take 8 hours, but you CAN do it.
@@sanbomics Thanks!
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 ?
I don't use windows enough to give you a clear answer. But, I think you will install it through wsl like linux. Expect lots of issues and errors though I am sure.. I think I tried this a couple years ago and gave up. Better to just use virtual box if you really want to stay on windows
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?
just try removing the directory with rm -r. Also, with the newer version of miniconda we need to install with shell instead of sh
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
I'm sorry but I don't know the solution to that specific problem. Miniconda on winows is not nearly as streamlined as on mac/linux. I suggest that if you plan to do a decent amount of data analysis that you switch over to a linux environment.
Thanks
No problem!