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42 repositories

marshmallow-msi
Public
A Python project for processing mass spectrometry imaging data (imzml) acquired from Bruker or Waters instruments."
Python
•
Other
•0•1•0•0•Updated Dec 29, 2025Dec 29, 2025
waters2imzml
Public
This script converts Waters raw data files to imzML format using ProteoWizard (through Docker).
Python
•
Other
•0•0•0•0•Updated Apr 28, 2025Apr 28, 2025
COSHH-API
Public
Go API complementing the COSHH UI web app
Go
•
Apache License 2.0
•1•0•0•0•Updated Sep 16, 2024Sep 16, 2024
COSHH-UI
Public
Angular web app for tracking the locations and expiry dates of laboratory chemicals
TypeScript
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Apache License 2.0
•1•0•0•0•Updated Sep 3, 2024Sep 3, 2024
image-converter
Public
Web service for cropping .ome.tiff files and combining .tiff files into a single pyramid .ome.tiff file
Go
•
Apache License 2.0
•0•0•0•0•Updated Jul 4, 2024Jul 4, 2024
gitlab-ci-cd-versioning
Public
Code versioning and other continuous integration helpers for Gitlab CI/CD pipelines
continuous-integration continuous-delivery ci-cd
continuous-integration continuous-delivery ci-cd
Python
•
Apache License 2.0
•1•0•0•0•Updated Jul 3, 2024Jul 3, 2024
regex-entity-resolver
Public
Scala web service for identifying terms within text and resolving them to a value
Scala
•
Apache License 2.0
•0•0•0•0•Updated Jul 2, 2024Jul 2, 2024
ai-tool-experiments
Public
Lots and lots of LLM agent and RAG demos using crew-ai, langchain & llama-index.
Python
•
Apache License 2.0
•0•0•0•0•Updated Jun 27, 2024Jun 27, 2024
supervisor
Public
Part of the Document Library micro service ecosystem. Co-ordinates all the consumer micro services.
cats scala mongodb
cats scala mongodb rabbitmq pekko
Scala
•
Apache License 2.0
•0•0•0•0•Updated Jun 26, 2024Jun 26, 2024
unarchiver
Public
Part of the Document Library micro service ecosystem. Uncompresses files that have been archived using zip, tar, gzip, 7zip & more
cats scala mongodb
cats scala mongodb rabbitmq pekko
Scala
•
Apache License 2.0
•0•0•0•0•Updated Jun 26, 2024Jun 26, 2024
scala-source-reader
Public
Utility methods to read text from input streams like zip files. Uses Apache Tika
scala tika poi
scala tika poi
Scala
•
Apache License 2.0
•0•0•0•0•Updated Jun 25, 2024Jun 25, 2024
document-to-text-converter
Public
Part of the Document Library micro service ecosystem. Converts PDFs and other document types to raw text. Uses Apache Tika.
cats pdf scala
cats pdf scala mongodb rabbitmq tika pekko
Scala
•
Apache License 2.0
•0•0•0•0•Updated Jun 25, 2024Jun 25, 2024
spreadsheet-to-text-converter
Public
Part of the Document Library micro service ecosystem. Converts spreadsheets to text.
cats scala mongodb
cats scala mongodb rabbitmq spreadsheet pekko
Scala
•
Apache License 2.0
•0•0•0•0•Updated Jun 24, 2024Jun 24, 2024
scala-mongo
Public
Scala wrapper for MongoDB
scala mongodb
scala mongodb
Scala
•
Apache License 2.0
•1•0•0•0•Updated Jun 24, 2024Jun 24, 2024
prefetch
Public
A Scala based microservice that fetches and processes remote files. Part of the Document Library eco-system
cats scala mongodb
cats scala mongodb rabbitmq pekko pekko-http pekko-connnectors
Scala
•
Apache License 2.0
•1•0•0•0•Updated Jun 7, 2024Jun 7, 2024
doclib-common
Public
Common utilities and components used by the document library
cats scala tika
cats scala tika prometheus-metrics play-json pekko pekko-streams
Scala
•
Apache License 2.0
•1•0•0•0•Updated Jun 7, 2024Jun 7, 2024
scala-utils
Public
A handful of convenience utilities in Scala for things like hashing and concurrency
scala monix play-json
scala monix play-json
Scala
•
Apache License 2.0
•1•0•0•0•Updated Jun 7, 2024Jun 7, 2024
py-mongo
Public
Wrapper for pymongo to allow simple instantiation of MongoDB from configuration.
python mongodb
python mongodb
Python
•
Apache License 2.0
•0•1•0•0•Updated May 22, 2024May 22, 2024
py-queue
Public
Module to abstract queues. Currently implements RabbitMQ.
python rabbitmq
python rabbitmq
Python
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Apache License 2.0
•0•0•0•0•Updated Apr 26, 2024Apr 26, 2024
scala-queue
Public
Use Scala & Pekko to send and receive typed messages with RabbitMQ
scala play-ws-standalone pekko-streams
scala play-ws-standalone pekko-streams pekko-connnectors
Scala
•
Apache License 2.0
•1•0•0•0•Updated Apr 17, 2024Apr 17, 2024
py-config
Public
Python lib that allows environment variables to override hocon style yaml or json config
config python environment-variables
config python environment-variables hocon
Python
•
Apache License 2.0
•2•0•0•0•Updated Feb 14, 2024Feb 14, 2024
py-postgres
Public
Methods to simplify configuring and connecting to Postgresql databases
python postgresql
python postgresql
Python
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Apache License 2.0
•0•0•0•0•Updated Oct 27, 2022Oct 27, 2022
aurac-web-plugin
Public
Browser plugin that can find, highlight and link to interesting life science things in web pages and PDFs.
firefox chrome proteins
firefox chrome proteins genes compounds ner life-sciences
TypeScript
•
Apache License 2.0
•0•1•0•0•Updated Sep 27, 2022Sep 27, 2022
PDF-Converter
Public
Webservice to convert PDFs to HTML
pdf webservice converter
pdf webservice converter
JavaScript
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Apache License 2.0
•1•0•0•0•Updated Sep 27, 2022Sep 27, 2022
viawebgl
Public
MDC clone of viawebgl
JavaScript
•
MIT License
•0•0•0•0•Updated Sep 16, 2022Sep 16, 2022
openseadragon
Public
MDC clone of openseadragon
JavaScript
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BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Sep 16, 2022Sep 16, 2022
bio-aurac
Public
Coordinating repository allowing users to run the bio-aurac application.
chrome-extension bioinformatics proteins
chrome-extension bioinformatics proteins firefox-extension genes ner life-sciences
JavaScript
•
Apache License 2.0
•0•0•0•0•Updated Aug 11, 2022Aug 11, 2022
py-util
Public
Utility methods to help work with lists & dicts
python lists dicts
python lists dicts
Python
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Apache License 2.0
•0•0•0•0•Updated Jul 29, 2022Jul 29, 2022
entity-recognition
Public
Web service to recognise entities in html using a redis based dictionary
redis webservice dictionary
redis webservice dictionary ner
Go
•
Apache License 2.0
•0•0•0•0•Updated Jul 29, 2022Jul 29, 2022
pdffigures2
Public
Given a scholarly PDF, extract figures, tables, captions, and section titles.
Scala
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Apache License 2.0
•132•0•0•0•Updated Jul 11, 2022Jul 11, 2022

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Medicines Discovery Catapult

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42 repositories

marshmallow-msi

waters2imzml

COSHH-API

COSHH-UI

image-converter

gitlab-ci-cd-versioning

regex-entity-resolver

ai-tool-experiments

supervisor

unarchiver

scala-source-reader

document-to-text-converter

spreadsheet-to-text-converter

scala-mongo

prefetch

doclib-common

scala-utils

py-mongo

py-queue

scala-queue

py-config

py-postgres

aurac-web-plugin

PDF-Converter

viawebgl

openseadragon

bio-aurac

py-util

entity-recognition

pdffigures2

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Repositories list

42 repositories