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@AberystwythSystemsBiology Aberystwyth Systems Biology

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    22 repositories

    • limbus

      Public
      LImBuS is an open source, standards compliant Biobank Information Management System developed by researchers from Aberystwyth University.
      limsbiobankbiospecimenbiobanking
      Python
      •
      GNU General Public License v3.0
      •4•34•5•5•Updated Aug 14, 2024Aug 14, 2024

    • limbus-qrtk

      Public
      An extremely simplistic QR/DataMatrix/Barcode toolkit for the LImBuS project.
      barcodedatamatrix
      Python
      •
      GNU General Public License v3.0
      •1•5•0•3•Updated Oct 3, 2023Oct 3, 2023

    • pyISOPACh

      Public
      A "fairly fast" ISOtope PAttern Calculator for Python
      pythongeneratorcheminformaticspatternisotopic
      Python
      •
      MIT License
      •1•9•0•1•Updated Sep 27, 2023Sep 27, 2023

    • matilda

      Public
      Clojure
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jan 18, 2023Jan 18, 2023

    • D-cOG

      Public
      cOG Annotation of protein sequences using deep learning
      Python
      •
      MIT License
      •0•0•0•8•Updated Dec 8, 2022Dec 8, 2022

    • dimedbpy

      Public
      Python wrapper for the DIMEdb REST API.
      bioinformaticsmetabolomicschemical-elementschemical-formulasmetabolic-modelspython
      Python
      •
      MIT License
      •0•5•0•2•Updated Jun 22, 2022Jun 22, 2022

    • dimedb-lts

      Public
      Long Term Support version of the DIMEdb Metabolite identification web service.
      MIT License
      •0•0•0•0•Updated Jun 9, 2022Jun 9, 2022

    • SCTTSRApy

      Public
      A Python Interface to the SNOMED CT Snowstorm API
      pythonsnomedsnomed-ctsnowstorm
      Python
      •
      GNU General Public License v3.0
      •2•1•0•0•Updated Apr 25, 2022Apr 25, 2022

    • MEDIALpy

      Public
      A small python package that allows the user to look up common medical abbreviations.
      medicineglossaryterminologymedical-informationmedical-abbreviationsmedical-terminologymedical-glossary
      Python
      •
      MIT License
      •1•12•1•0•Updated Apr 19, 2022Apr 19, 2022

    • CLICOSTA

      Public
      National Clinical Coding Standardiser
      MIT License
      •0•0•0•0•Updated Mar 29, 2022Mar 29, 2022

    • sog

      Public
      Simple Ontology Grep - A REST service for searching near-matches in ontology labels
      Clojure
      •
      Eclipse Public License 2.0
      •0•1•0•0•Updated Mar 28, 2022Mar 28, 2022

    • DIMEdb

      Public
      DIMEdb: Metabolite identification web service.
      bioinformaticsmetabolomics
      HTML
      •
      MIT License
      •0•3•1•0•Updated Mar 14, 2022Mar 14, 2022

    • pyMEAN

      Public
      A Python package for metabolite enrichment analysis.
      metabolomicsintegrative-analysispathway-enrichment-analysismetabolomics-pipeline
      Python
      •
      GNU General Public License v3.0
      •2•8•2•1•Updated Mar 11, 2022Mar 11, 2022

    • icd10-cm-ng

      Public
      ICD-10 CM medical classification list by the World Health Organization
      Python
      •
      MIT License
      •27•0•0•0•Updated Feb 1, 2022Feb 1, 2022

    • MIMIC-III-to-SNOMED

      Public
      Preprocessed SNOMED relations files that connect drugs and diagnoses from MIMIC-III to SNOMED. Fork of cscihkbu/Snomed-Proprocessed.
      snomedicd-10mimic-iiiicd-9icd
      1•1•0•0•Updated Jan 27, 2022Jan 27, 2022

    • DIMEpy

      Public archive
      Python package for the high-throughput nontargeted metabolite fingerprinting of nominal mass direct injection mass spectrometry directly from mzML files.
      statisticsmetabolomicspythondirect-infusion-metablomics
      Python
      •
      GNU General Public License v3.0
      •3•9•3•1•Updated Nov 10, 2021Nov 10, 2021

    • n2c22018t12sql

      Public
      Tool for importing n2c2 2018 Track 1 "Cohort Selection for Clinical Trials" data into SQL
      Clojure
      •
      Other
      •1•0•0•0•Updated Nov 8, 2021Nov 8, 2021

    • ann2sql

      Public
      Script to iterate over rows in a SQL database, annotate with MedCATservice, and store in a destination database.
      Clojure
      •
      Other
      •1•0•0•0•Updated Nov 8, 2021Nov 8, 2021

    • icd9-to-snomedct

      Public
      Shell script to create TTL file of annotations to augment an existing ICD9 triple graph to point to SNOMEDCT concepts.
      Shell
      •
      MIT License
      •0•0•0•0•Updated Oct 15, 2021Oct 15, 2021

    • limbus-ova

      Public
      Repostiory Containing the Open Virtualisation Appliance for various releases of LImBuS
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 28, 2021Jan 28, 2021

    • deep-annot

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 4, 2020Apr 4, 2020

    • deepseq2vec-repo

      Public
      Repositories for the DeepSeq2Vec web portal
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Sep 13, 2018Sep 13, 2018