phac-nml/sistr_cmd

SISTR (Salmonella In Silico Typing Resource) command-line tool

Language: Python - Size: 85.8 MB - Last synced at: about 20 hours ago - Pushed at: 3 months ago - Stars: 32 - Forks: 10

apredeus/10k_genomes

Various scripts for efficient processing of 10k Salmonella genomes

Language: Shell - Size: 42.1 MB - Last synced at: almost 2 years ago - Pushed at: almost 4 years ago - Stars: 12 - Forks: 2

CFSAN-Biostatistics/bettercallsal

Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.

Language: Nextflow - Size: 53.2 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 11 - Forks: 2

superphy/AMR_Predictor

Machine learning methods to predict the anti-microbial resistance of Salmonella.

Language: Python - Size: 482 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 3 - Forks: 1

amrnet/amrnet

The AMRnet dashboard aims to make high-quality, robust and reliable genome-derived AMR surveillance data accessible to a wide audience

Language: JavaScript - Size: 72.3 MB - Last synced at: 1 day ago - Pushed at: 2 days ago - Stars: 2 - Forks: 0

rmrao/cmpbio-final-project

Language: Jupyter Notebook - Size: 10.3 MB - Last synced at: about 1 month ago - Pushed at: over 5 years ago - Stars: 2 - Forks: 1

ImperialCollegeLondon/cgps-genotyphi

CGPS implementation of Genotyphi for assembled genomes.

Language: Java - Size: 2.91 MB - Last synced at: 4 months ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 0

aongithub172/recsalmo

Bioinformatics tool for Salmonella WGS analysis

Language: Python - Size: 9.08 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 1 - Forks: 0

jimmyliu1326/SamnSorter

Fast assortment of Salmonella genomes into stable clusters using phylogenetic placement and kNN classifier

Language: R - Size: 76.2 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 1 - Forks: 0

VishnuRaghuram94/SEPI

SEPI - Salmonella enterica poultry imports . Data analysis code for the study 'Genomic surveillance of Salmonella enterica Minnesota strains from poultry products imported into South Africa'

Size: 13.9 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

phac-nml/irida-plugin-sistr

IRIDA Plugin for SISTR Salmonella Typing Tool

Language: Java - Size: 36.2 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

pommevilla/pesica

Detection, extraction, and cluster assignment of S. Infantis pESI

Language: Python - Size: 224 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

superphy/prairiedog

next-gen pangenome graphs for predictive genomics

Language: Python - Size: 32.8 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

BehnsenLab/Siderophores

Xenosiderophores produced by gut commensal fungi or present in the diet promote Salmonella enterica serovar Typhimurium growth and gut colonization

Language: R - Size: 236 KB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

ChristopheVdE/Illumina-pipeline-pathogenwatch 📦

Salmonella typhi; analysis pipeline for Illumina reads

Language: Python - Size: 262 MB - Last synced at: almost 2 years ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0