Explore @onecodex Open Source projects

One Codex (@onecodex)

onecodex

Stars
588
Global Org. Rank 21,670 (Top 7 %)
Registered over 10 years ago
Most used languages

Rust
35.3 %

Python
35.3 %

Dockerfile
11.8 %

HTML
5.9 %

Nim
5.9 %

Jupyter Notebook
5.9 %

rust-bfield

B-field implementation in Rust

needletail

Fast FASTX parsing and k-mer methods in Rust

finch-rs

A genomic minhashing implementation in Rust

taxonomy

Python and Rust library for loading, saving, and manipulating taxonomic trees

sars-cov-2

SARS-CoV-2 variant calling and consensus assembly pipeline

Jupyter Notebook

onecodex

Command line interface and Python client library for the One Codex API

chrononaut

A history mixin with audit logging, record locking, and time travel for FlaskSQLAlchemy

nim-bitarray

Bitarray implementation in Nim

mmap-bitvec

Rust implementation of a mmap-based bit vector

taxonomy-rs

Load, save, and manipulate taxonomic trees

docker-bwa

BWA and samtools in a docker. Useful for mapping reads, sorting sam/bam files etc.

docker-onecodex-notebook

Docker image with a Jupyter notebook environment for embedded use on One Codex

docker-unicycler

Docker container for the Unicycler hybrid assembler

docker-ngsqc

NGS quality control binaries and pipelines

assembly-annotation-tools

onecodex-uploader

(DEPRECATED) GUI uploader for the One Codex site

docker-scipy-notebook

Jupyter notebook scipy image