Stars
A growing collection of bioinformatics tutorials, project guides, tools, and articles I’ve developed to make bioinformatics more accessible.
resources for learning bioinformatics
Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration
Tool comparison for detecting differentially expressed individual transposable elements
Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
A cheatsheet for basic best practice in R programming
Finding gene expression states in scRNA-seq data
Enhancing {ggplot2} plots with statistical analysis 📊📣
Download FASTQ files from SRA or ENA repositories.
Pipeline for the analysis of PE ChIP-seq data
Approaching (Almost) Any Machine Learning Problem
The course work for the applied machine learning course I am teaching at BYU
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
A list of interesting genome browser and genome visualization programs
A next-generation curated knowledge sharing platform for data scientists and other technical professions.
🎇 SCelVis - web-based visualization of single-cell data. ➡️ ➡️ Demo ➡️➡️
Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
A list of deep learning implementations in biology
scRNAseq analysis notes from Ming Tang
LIONS is a bioinformatic analysis pipeline which brings together a few pieces of software and some home-brewed scripts to annotate a paired-end RNAseq library to detect TE-intiated transcripts
An interactive heatmap visualization built using D3.js
Customizable workflows based on snakemake and python for the analysis of NGS data