A dplyr backend that partitions a data frame over multiple processes

Take your Shiny skills to the next level

ENCODE long read RNA-seq pipeline

A tool for estimating repeat sizes

Tools for fiberseq data written in rust.

Lightweight C++ library for reading FASTA and FASTQ files.

common useful script

A collection of handy Bash One-Liners and terminal tricks for data processing and Linux system maintenance.

Unsorted scripts for bioinformatics

Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

Java utilities for Bioinformatics

Script to automatically create and run IGV snapshot batchscripts

Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.

Fast reading of delimited files

Learning about Docker.

Genome Assembly and Annotation Service code

GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools

Bead-based single-cell atac processing

📊Evaluating, filtering, comparing, and visualising VCF

R in a Singularity container

Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders

Parse samtools pileup file to get how many bases and what kind of bases are called

nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis

Makefile for reference annotations for genes & genomic regions

RNA-seq for Mendelian disease diagnostics: A hands-on tutorial through bioinformatic tools and workflows

The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants

Sample scripts to run Spark jobs on Hyak

common scripts for managing jobs on Hyak