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ads1-notebooks

Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing

ads1-slides

Slides for Algorithms for DNA Sequencing Coursera class

bad-boids

A deliberately badly programmed implementation of Boids for teaching

biospark

Cambridge Gravity BioSpark Challenge 2022/23 - CRISPR database visualisation platform

chipseq-smk

A custom Snakemake pipeline for ChIP-seq analysis in bioinformatics.

easy-markdown-beamer-pandoc

Simple things nobody tells you how to do

ebi02156

farmpy

Python3 package to handle job submission to a compute farm

github_example

working repository for rse course

intro-machine-learning

intro-stan-python

Notebooks with introductory material on using Stan, from Python

isl-python

Porting the R code in ISL to python. Labs and exercises

islr-python

An Introduction to Statistical Learning (James, Witten, Hastie, Tibshirani, 2013): Python code

manim

Animation engine for explanatory math videos

odgi

Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs

password_generator

Python script to generate random passwords.

phd-thesis-template

My customised version of the popular LaTeX / XeLaTeX / LuaLaTeX PhD thesis template for Cambridge University Engineering Department (CUED)

poole

The Jekyll Butler. A no frills responsive Jekyll blog theme.

r_bookclub18

Notes and code from the Sainsbury Laboratory Cambridge University book club.

remark

A simple, in-browser, markdown-driven slideshow tool.

reveal.js

The HTML Presentation Framework

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

rsd-engineeringcourse

Materials for Turing's Research Software Engineering course

sc_mixology

This contains the dataset for comparing scRNA-seq analysis methods

scrapbook

Code snippets, useful one-liners and related trivia.

single-cell-rna-seq

A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.

slurm

Cookiecutter for snakemake slurm profile

snakemake-slurm-profile

Profile for running snakemake with slurm job submissions

styles

Official repository for Citation Style Language (CSL) citation styles.

weighted_k_means

A weighted k-means implementation.