All software
Brian
Brian is a free, open source simulator for spiking neural networks. It is written in the Python programming language and is available on almost all platforms. Brian is designed to be easy to learn and use, highly flexible and easily extensible.
- biological neural networks
- computational neuroscience
- Python
- + 1
- (C)
- (C++)
- (Cython)
- + 5
Solcore
A multi-scale, python-based library for the modelling of solar cells and semiconductor materials.
- Python
- semiconductors
- solar cells
Auto-CORPus
The Automated pipeline for Consistent Outputs from Research Publications (Auto-CORPus) is a tool for the standardisation and conversion of publication HTML to three convenient machine-interpretable outputs (full-text, tables, abbreviations) in BioC-JSON formats to support biomedical text analytics.
- bioc
- html
- information retrieval
- + 4
CoDiet-Corpus
Code repository for the creation and annotation of corpora in the CoDiet project providing scripts to generate Bronze and Silver annotated test datasets. It leverages multiple pipelines, including dictionary matching, MetaMap, enzyme annotation, PhenoBERT, MicrobELP, and BERN2.
- bionlp
- named entity recognition
- natural language processing
- + 3
MicrobELP
microbELP is a text mining pipeline for automatic recognition and normalisation of microbiome-related entities in biomedical literature. It identifies microbial mentions (excluding viruses) in full-text scientific articles and links them to their NCBI Taxonomy identifiers.
- bionlp
- entity linking
- information retrieval
- + 8
pycsvy
Python reader/writer for CSV files with YAML header information
- CSV
- Inter-operability & linked data
- Python
- + 1
safedata_validator
The safedata_validator package provides methods to validate whether XLSX files containing formatted data and metadata are consistent with the SAFE Project ecological metadata standard.
- dataset validation
- Ecological data
- metadata standards
- + 1