medspacy
scispacy
| medspacy | scispacy | |
|---|---|---|
| 2 | 2 | |
| 478 | 1,616 | |
| 1.9% | 1.4% | |
| 8.3 | 6.7 | |
| 8 days ago | about 1 month ago | |
| Jupyter Notebook | Python | |
| MIT License | Apache License 2.0 |
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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.
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
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.
What are some alternatives?
spaCy - 💫 Industrial-strength Natural Language Processing (NLP) in Python
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
tf-transformers - State of the art faster Transformer with Tensorflow 2.0 ( NLP, Computer Vision, Audio ).
interpret - Fit interpretable models. Explain blackbox machine learning.
spacy-models - 💫 Models for the spaCy Natural Language Processing (NLP) library
practical-pytorch - Go to https://github.com/pytorch/tutorials - this repo is deprecated and no longer maintained
typedb-bio - TypeDB Bio: Biomedical Knowledge Graph
course-nlp - A Code-First Introduction to NLP course
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.
TopMost - A Topic Modeling System Toolkit
GeneLab_Data_Processing