phoenix

Pathogen analysis pipeline

An open-source software pipeline for analyzing short-read sequencing data from healthcare-associated and antimicrobial resistant pathogens.

🔥🐦🔥PHoeNIx: A short-read pipeline for healthcare-associated and antimicrobial resistant pathogens

GitHub

59 stars
8 watching
18 forks
Language: Python
last commit: 3 days ago
Linked from 1 awesome list


Backlinks from these awesome lists:

Related projects:

Repository Description Stars
cdcgov/sc2clia Analyzes SARS-CoV-2 sequencing data using a bioinformatics pipeline 4
cdcgov/mycosnp-nf An analysis pipeline for whole genome sequencing of fungal organisms. 37
praetorian-inc/gato An enumeration and attack tool for identifying vulnerabilities in GitHub pipelines. 569
bcbio/bcbio-nextgen A high-level configuration file drives parallel variant calling and analysis on sequencing data. 994
cert-polska/karton A framework for building flexible and lightweight malware analysis pipelines 393
bjpop/rubra A bioinformatics pipeline system that supports running workflow stages on a distributed compute cluster. 38
dana-farber-aios/pathml A toolkit for computational pathology that provides tools and frameworks for analyzing biomedical images and data 392
markrobinsonuzh/cytofworkflow A pipeline for differential analysis of high-throughput cytometry data 14
ncbi-hackathons/spew Automates the packaging and distribution of bioinformatics pipelines for seamless deployment on various workstations. 26
crickbabs/babs-adnaseq A Nextflow pipeline script for processing ancient DNA sequencing data. 2
pidydx/smrt A Sublime Text 3 plugin providing tools for malware analysis and research 64
virustotal/yara-python A Python interface to use YARA's features from Python programs 661
chrisquince/desman Software for analyzing genetic data from environmental samples to infer the presence of specific strains 69
thephpleague/pipeline Provides a flexible pipeline pattern implementation to compose sequential stages and process payloads in a composable manner. 960
xnuohz/graph-kernel A Python framework for graph similarity analysis using kernel methods. 0