Git Product home page Git Product logo

Botnar Computational Group

This is a collection of ruffus pipelines and R scripts used for the cribbs group at the botnar research centre Oxford.

Installation

Conda environment

I recommend using miniconda to install a conda environment followed by mamba:

conda install mamba
mamba env create -f conda/environments/cribbslab.yml

Manual installation

The repository can also be installed manually, but dependancies will need to be installed seperately::

python setup.py develop
cribbslab --help

Usage

Run the ``cribbslab --help`` command view the help documentation for how to run the available workflows.

To run a pipeline first generate a configuration file::

    cribbslab <workflow> config

Then run the pipeline::

    cribbslab <workflow> make full -v5

cribbslab's Projects

cribbslab icon cribbslab

These are the workhorse pipelines for the Adam Cribbs' lab

resimpy icon resimpy

Simulating reads of varying sequencing technologies

tallytrin icon tallytrin

Repo for working on long-read triple amidite bulk RNA-seq

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.