Joseph Guhlin

minimap2-rs. Rust bindings to minimap2 library

sfasta. sfasta

lostruct-py. Jupyter Notebook

ODG. ODG: Omics Database Generator - Integration toolkit for -omics data

nanopore-basecaller-training. Experiments on training the nanopore basecaller (bonito -> guppy is the goal)

syncmers. Library for finding syncmers from &[u8] in rust

biotools. Bio* library for Clojure, with a focus on reducers and parallelism support

beaker. Jupyter Notebook

useful-nextflow-patterns. Useful nextflow patterns and examples

phlash. Accelerated Bayesian inference of population size history from whole genome data.

sbrowser. Rust

fffx-tools. Simple utils for cleaning up FASTX files

explode_orfs. Rust

Conservation_Genomics_The_Book. Book for Practical aspects of Conservation Genomics

stonefly_anno. Shell

taffy-alignment. Rust bindings for TAFFY Alignment

singularity-containers.

needletail. Fast FASTX parsing and k-mer methods in Rust

AnnoSINE. SINE annotation tool for plant genomes

Nextflow_Workshop. A workshop to help you integrate Nextflow in your analysis workflows for reproducible and scalable pipelines.

bptree. Basic B+ Tree for use in SFASTA (and possibly elsewhere)

fishtank. Fishtank: Manage your Nanopore Sequencing and Basecalling <*((((>< <*((((><

repeat-element-analysis. Commands, Scripts, and custom Programs used to analyze repeat elements in a forthcoming publication

hal. Hierarchical Alignment Format

acc2tax. acc2tax

genome-annotation-guide. Makefile

DeepVariantPipeline. Python