medspacy
Library for clinical NLP with spaCy. (by medspacy)
| medspacy | GeneLab_Data_Processing | |
|---|---|---|
| 2 | 1 | |
| 479 | 55 | |
| 2.1% | - | |
| 8.3 | 9.2 | |
| 8 days ago | 10 days ago | |
| Jupyter Notebook | Jupyter Notebook | |
| MIT License | - |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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.
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.
medspacy
Posts with mentions or reviews of medspacy.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-11-05.
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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
GeneLab_Data_Processing
Posts with mentions or reviews of GeneLab_Data_Processing.
We have used some of these posts to build our list of alternatives
and similar projects.
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Where do you start off trying to learn bioinformatics?
Ooh, I love bioinformatics! I feel like I never stop learning. There are honestly so many possibilities and tools you could use for your pipeline, but it really depends on what kind of experiments you are running. I recently came across GeneLab from NASA, which has a very thorough pipeline (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8044432/). This paper is for short sequences but their GitHub page has pipelines for both bulk- and sc- RNA-seq GeneLab GitHub. You can look at their Jupiter notebooks with specific codes and programs used.
What are some alternatives?
When comparing medspacy and GeneLab_Data_Processing you can also consider the following projects:
spaCy - 💫 Industrial-strength Natural Language Processing (NLP) in Python
pdpipe - Easy pipelines for pandas DataFrames.
tf-transformers - State of the art faster Transformer with Tensorflow 2.0 ( NLP, Computer Vision, Audio ).
interpret - Fit interpretable models. Explain blackbox machine learning.
scispacy - A full spaCy pipeline and models for scientific/biomedical documents.
practical-pytorch - Go to https://github.com/pytorch/tutorials - this repo is deprecated and no longer maintained
course-nlp - A Code-First Introduction to NLP course
TopMost - A Topic Modeling System Toolkit