scispacy
medspacy
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| scispacy | medspacy | |
|---|---|---|
| 2 | 2 | |
| 1,612 | 477 | |
| 2.7% | 3.8% | |
| 6.9 | 8.3 | |
| 28 days ago | 8 days ago | |
| Python | Jupyter Notebook | |
| Apache License 2.0 | MIT License |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
scispacy
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Guidance needed: Extracting diseases and symptoms from medical text
https://github.com/medspacy/medspacy and https://allenai.github.io/scispacy/ should get you most of the way there
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Installing SciSpacy on Apple M1 Laptops
The ** pip install -r requirement.txt ** failed with lot of errors while installing a dependency ** nmslib ** with an error ** clang compiler does not support '-march=native' **. Since I already had the Xcode installed on my Mac the version of C was 11 but somehow the mentioned command was failing, since the said argument was not supported on the C version. With a lot of digging around I finally found a solution mentioned on SciSpacy GitHub page.
medspacy
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Guidance needed: Extracting diseases and symptoms from medical text
https://github.com/medspacy/medspacy and https://allenai.github.io/scispacy/ should get you most of the way there
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[N] Google confirms DeepMind Health Streams project has been killed off
Not to hand, but there are a few frameworks. The big one is cTAKES, but also fastumls. Uh I work with two others: LEO which is a fancy version of cTAKES and medspacy, which is a medical version of spacy, which is great. Bonus points: medspacy is in python. Disclaimer: I actually work on medspacy. https://github.com/medspacy/medspacy
What are some alternatives?
rasa - 💬 Open source machine learning framework to automate text- and voice-based conversations: NLU, dialogue management, connect to Slack, Facebook, and more - Create chatbots and voice assistants
spaCy - 💫 Industrial-strength Natural Language Processing (NLP) in Python
tf-transformers - State of the art faster Transformer with Tensorflow 2.0 ( NLP, Computer Vision, Audio ).
spacy-models - 💫 Models for the spaCy Natural Language Processing (NLP) library
interpret - Fit interpretable models. Explain blackbox machine learning.
typedb-bio - TypeDB Bio: Biomedical Knowledge Graph
practical-pytorch - Go to https://github.com/pytorch/tutorials - this repo is deprecated and no longer maintained
SigProfilerExtractor - SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
course-nlp - A Code-First Introduction to NLP course
TopMost - A Topic Modeling System Toolkit
GeneLab_Data_Processing