ArtRand

signalAlign

HMM-HDP models for MinION signal alignments

kafka-actix-example

Classic wordcount, updated with async/await!

CytosineMethylationAnalysis

Scripts and ipython notebooks for reproducing results from "Cytosine Methylation Variation Calling with MinION Nanopore Sequencing"

signalAlign_notebook

Notes and scripts for signalAlign

HiPhase

Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads

cPecan-signal

C + python code for pairwise multiple sequence alignment, pulling out this functionality from the Cactus alignment program adapted to align signal-level information from ONT MinION

currennt

Modified fork of CURRENNT https://sourceforge.net/projects/currennt/

dcos-commons

dotfiles

settings and envs

go

The Open Source Data Science Masters

grass-demo

HDP_models

signalAlign hierarchical Dirichlet process models

linfa

A Rust machine learning framework.

marginAlign

UCSC Nanopore

marginPhase

mesos-spark-integration-tests

Mesos Integration Tests on Docker/Ec2

NA12878

Data and analysis for NA12878 genome on nanopore

nanonet

First generation RNN basecaller

noodles

Bioinformatics I/O libraries in Rust

Parcours

# Under Construction

roughly

Smith-Waterman in Rust

rust-htslib

This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.

sonLib

Small general purpose library for C and Python with focus on bioinformatics.

spoa

Partial order alignment consensus tool

spoa-rs

A rust wrapper for the spoa C++ partial order alignment library

toil

A scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python

toil-marginAlign

Toil-based marginAlign and SignalAlign pipeline

toil-methylseq

Pipeline for WGBS data

toil-signalAlign

Toil scripts for signalAlign analysis of ONT data

vg

tools for working with variation graphs