Information & Computational Sciences (ICS), James Hutton Institute
Hutton ICS staff write or contribute to a number of open source scientific projects, and we try to mirror these here to showcase the breadth of our expertise.
Scotland, United Kingdom
Pinned Repositories
agmicrobiomebase
UK Crop Microbiome Cryobank
fearlusOWL
Code to accompany the paper http://dx.doi.org/10.1007/s10980-009-9381-5
germinate-brapi
BrAPI implementation for Germinate
germinate-codegen
germinate-server
The generic plant genetic resources database
gridscore-next-server
GridScore server implementation for sharing GridScore configurations.
netlogo-jvmgr
A NetLogo extension allowing you to access information about the JVM in NetLogo
pick-a-mix-server
tablet
Tablet is a lightweight, high-performance graphical viewer for next generation sequence assemblies and alignments.
utils
Various utility Java classes
Information & Computational Sciences (ICS), James Hutton Institute's Repositories
HuttonICS/agmicrobiomebase
UK Crop Microbiome Cryobank
HuttonICS/pyani
Python module for average nucleotide identity analyses, originally started within Hutton ICS
HuttonICS/brapi-java
A Breeding Api (BrAPI) implementation written in Java. Contains all data objects, client and server interfaces for all modules.
HuttonICS/flapjack
Flapjack
HuttonICS/germinate-brapi
BrAPI implementation for Germinate
HuttonICS/germinate-codegen
HuttonICS/germinate-importer
HuttonICS/germinate-server
The generic plant genetic resources database
HuttonICS/germinate-vue
Germinate is an open source plant database infrastructure and application programming platform on which complex data from genetic resource collections can be stored, queried and visualized.
HuttonICS/get-germinate
HuttonICS/gridscore-next-client
GridScore is a field phenotyping app for trials data.
HuttonICS/gridscore-next-server
GridScore server implementation for sharing GridScore configurations.
HuttonICS/humbug
Humbug is a multi-platform barcode generator which can be used alongside our Germinate Scan application to generate sheets of user-defined barcodes to aid in the recording of data in the field or glasshouse.
HuttonICS/ncfp
Program to pull NCBI nucleotide sequences coding for proteins in a protein multiple sequence file
HuttonICS/netlogo-bitstring
A bitstring class for netlogo
HuttonICS/NetLogo-tk
Toolkit for NetLogo (various scripts)
HuttonICS/pick-a-mix-server
HuttonICS/biopython
Various James Hutton Institute staff contribute to Biopython
HuttonICS/BrAPI
Repository for version control of the BrAPI specifications
HuttonICS/galaxy_blast
Galaxy wrappers for NCBI BLAST+ and related BLAST tools.
HuttonICS/gatekeeper-server
User management system for Germinate.
HuttonICS/gatekeeper-vue
HuttonICS/germinate-data-templates
Germinate data template Excel spreadsheets
HuttonICS/germinate-i18n
HuttonICS/pico_galaxy
Galaxy tools and wrappers for sequence analysis
HuttonICS/picobio
Miscellaneous Bioinformatics scripts etc mostly in Python by Peter Cock
HuttonICS/q2-thapbi-pict
Qiime2 plugin for THAPBI PICT (q2-thapbi-pict)
HuttonICS/sgone
Easily identify possible duplicates in your data.
HuttonICS/thapbi-pict
Tree Health and Plant Biosecurity Initiative - Phytophthora ITS1 Classifier Tool
HuttonICS/ThreeDRNAseq
A shiny App for differential expression and differential alternative splicing analysis