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Tim Fennell's starred repositories

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

Language:JavaMIT963 159 805

Tools for working with genomic and high throughput sequencing data.

Language:ScalaMIT308 19 408

CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.

Language:PythonBSD-3-Clause279 10 308

A Java API for high-throughput sequencing data (HTS) formats.

Language:Java278 50 591

Create force-directed graphs of RNA secondary structures.

Language:JavaScriptApache-2.096 8 47

This repository contains information about latest release from Genome in a Bottle project

A scala based DSL and framework for writing and executing bioinformatics pipelines as Directed Acyclic GRaphs

Language:ScalaMIT69 12 99

Data from the Human PanGenomics Project

NOASSERTION60 10 12

Fast FASTQ sample demultiplexing in Rust.

Language:RustMIT54 12 13

A better, faster way to count guides in CRISPR screens.

Language:RustMIT26 2 10

Java Bindings (JNI) for bwa

Language:JavaApache-2.019 9 4

An argument parsing library for Scala

Language:ScalaMIT10 9 7

Common scala utilities

Language:ScalaMIT4 9 15

A small utility for formatting things the way Tim prefers.

Language:RustNOASSERTION4 20