a lexicographically-based GTF/GFF sorter

Pairwise whole genome aligner

Toolkit for calling structural variants using short or long reads

Genome browser and variant annotation

A library and tool for accessing remote BLOW5 files.

Plot structural variant signals from many BAMs and CRAMs

Master the command line, in one page

Template for future skippy project

An R package to create forestplots of measures of effects with their confidence intervals.

Clojure dataframe library

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

Pdfs of slides from 2018 popgen course

don't get DUP'ed or DEL'ed by your putative SVs.

functional, durable data structures

A genomic minhashing implementation in Rust

Machine Learning From Scratch. Bare bones NumPy implementations of machine learning models and algorithms with a focus on accessibility. Aims to cover everything from linear regression to deep lear…

De novo genome assembly and multisample variant calling

Tutorials on visualizing data using python packages like bokeh, plotly, seaborn and igraph

Course materials for BIOST561

Hadoop-BAM is a Java library for the manipulation of files in common bioinformatics formats using the Hadoop MapReduce framework

A platform to build and run apps that are elastic, agile, and resilient. SDK, libraries, and hosted environments.

Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.

Documentation and description of AWS iGenomes S3 resource.

Toolkit to analyze genomic variation data, built on the GATK with Clojure

sensible.vim: Defaults everyone can agree on

interactive plots generator for Ruby

A library/plugin for handling 3D structural molecular data (not only) in the browser.

Applied Computational Genomics Course at UU: Spring 2020