16 results found Sort:

sanger-pathogens
Roary sanger-pathogens
189
297
other
29
Rapid large-scale prokaryote pan genome analysis
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2013-04-18
930 commits to master branch, last one 2 years ago
SORMAS-Foundation
SORMAS-Project SORMAS-Foundation
135
292
gpl-3.0
28
SORMAS (Surveillance, Outbreak Response Management and Analysis System) is an early warning and management system to fight the spread of infectious diseases.
web sdg-3 android covid-19 diseases outbreak epidemics surveillance low-bandwidth offline-first contact-tracing infectious-diseases
Created 2016-05-13
27,539 commits to development branch, last one 4 days ago
EpiModel
EpiModel EpiModel
59
240
gpl-3.0
21
Mathematical Modeling of Infectious Disease Dynamics
epidemics epidemiology network-graph infectious-diseases agent-based-modeling
Created 2014-07-13
3,699 commits to main branch, last one 29 days ago
sanger-pathogens
Artemis sanger-pathogens
74
227
other
17
Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2009-09-30
5,443 commits to master branch, last one about a year ago
sanger-pathogens
circlator sanger-pathogens
56
219
other
21
A tool to circularize genome assemblies
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2015-04-16
387 commits to master branch, last one 9 months ago
CSSEGISandData
COVID-19_Unified-Dataset CSSEGISandData
59
180
unknown
20
Unified COVID-19 Dataset
covid-19 pandemic sars-cov-2 coronavirus epidemiology global-health hydrometeorology machine-learning infectious-diseases
Created 2020-06-10
883 commits to master branch, last one 11 months ago
nickjcroucher
gubbins nickjcroucher
50
156
gpl-2.0
13
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2011-11-01
2,414 commits to master branch, last one about a month ago
sanger-pathogens
ariba sanger-pathogens
52
155
other
22
Antimicrobial Resistance Identification By Assembly
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2015-02-11
1,797 commits to master branch, last one about a year ago
sanger-pathogens
assembly-stats sanger-pathogens
22
108
other
18
Get assembly statistics from FASTA and FASTQ files
genomics pathogen research sequencing global-health bioinformatics infectious-diseases next-generation-sequencing
Created 2014-04-04
36 commits to master branch, last one about a year ago
chanzuckerberg
czid-web chanzuckerberg
22
77
mit
22
Infectious Disease Sequencing Platform
czid biology science genomics research virology sequencing metagenomic global-health bioinformatics chan-zuckerberg-id infectious-diseases computational-biology bioinformatics-pipeline next-generation-sequencing
Created 2017-08-02
5,922 commits to main branch, last one 12 hours ago
jangevaare
Pathogen.jl jangevaare
10
72
mit
8
Simulation, visualization, and inference of individual level infectious disease models with Julia
mcmc julia epidemics evolution infectious-diseases transmission-network
Created 2015-05-07
280 commits to master branch, last one about a year ago
sanger-pathogens
Fastaq sanger-pathogens
19
68
other
19
Python3 scripts to manipulate FASTA and FASTQ files
genomics pathogen research sequencing global-health bioinformatics infectious-diseases next-generation-sequencing
Created 2013-09-06
299 commits to master branch, last one 2 years ago
sanger-pathogens
pathogen-informatics-training sanger-pathogens
36
64
cc-by-4.0
10
This repository has no description...
genomics pathogen research sequencing global-health bioinformatics infectious-diseases next-generation-sequencing
Created 2015-11-12
396 commits to master branch, last one 3 years ago
sanger-pathogens
assembly_improvement sanger-pathogens
21
53
other
16
Improve the quality of a denovo assembly by scaffolding and gap filling
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2012-08-15
384 commits to master branch, last one 3 years ago
antonin-lfv
simulation_virus_covid-19 antonin-lfv
15
52
mit
3
Simulating epidemics using Python
virus plotly python simuler covid-19 diseases graphics subplots pie-chart sir-model matplotlib sidr-model simulation confinement epidemiology visualisation visualization une-population infectious-diseases
Created 2020-06-18
660 commits to master branch, last one 6 months ago
sanger-pathogens
iva sanger-pathogens
18
52
other
13
de novo virus assembler of Illumina paired reads
genomics pathogen research sequencing global-health bioinformatics infectious-diseases bioinformatics-pipeline next-generation-sequencing
Created 2014-04-30
299 commits to master branch, last one 3 years ago