Script repository

[micro-hg-cpg]

Hello!
At the end of last year, a few of us said would be really useful for everyone but especially new users of marbits to have a repository with general scripts. I particularly have a lot of issues deciding how much mem and how many cpu to use in my scripts, even if you know how to run the program sometimes having other examples help you to be more efficient.

I would be happy to help but I'm no expert on bioinformatics so my scripts are probably not that great xdd However I can help to manage it and create the structure and documentation.

I would like to know how many people is willing to help.

Cheers,
Carla.

[franlat]

Perhaps what you are looking for is the Wiki from GitHub? You can create wiki pages and link them in the DOCS section (https://github.com/marbits-icm/marbits-public/wiki).

That section is a bit outdated (from the old GitLab days), though, but it can be worked on.

Also, people do not receive notifications from GitHub unless they activate it. Consider copying this in the old Marbits SLACK group, so interested people can see it.

[micro-hg-cpg]

No, that is more about how marbits work. I was saying a practical thing, for example how to use megahit, prokka, bowtie, that kind of thing but having them with information enough to be as efficient as possible. For example, how much memory you need or if it takes more cpu power than mem, how long things take so new people can actually plan things and not just wait around for them. Its more a easy crush curse on the most used things so people can get a head start.

[pablo-icm]

You both are talking about the same thing. The good thing about github is that it is a collaborative repository. We need to update the wiki thing (my bad) but we can include all the template scripts that Carla says either in a wiki format or in a folder called scripts. I'll put an example soon so the community can collaborate.