weblogo
deepvariant
| weblogo | deepvariant | |
|---|---|---|
| 2 | 5 | |
| 135 | 3,080 | |
| 1.5% | 0.9% | |
| 3.7 | 9.1 | |
| 2 months ago | about 2 months ago | |
| Python | Python | |
| GNU General Public License v3.0 or later | BSD 3-clause "New" or "Revised" 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.
weblogo
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Using MEME general motif finder for splice site consensus?
To get the consensus of splice motifs I usually don't do motif discovery, because I already know where the motif is supposed to be. Instead, I get a window around the splice sites, extract the sequences and collect them in a fasta file. Then I upload the sequences in weblogo to visualize the sequence logo.
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Amino acid alignment to find shared motifs
you can use this on the comnand line to make nice sequence logos: https://github.com/WebLogo/weblogo
deepvariant
- Look over my purchase, is there anything I should return?
- Welche Berufe haben ein riesiges Angebot an Arbeitskräften (zb. Marketing) und welche Berufe haben wirklich echten Fachkräftemangel und brauchen dringend mehr öffentliche Plattform?
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Give me your suggestions for papers with a Convolutional Neural Network in Bioinformatics
See https://www.nature.com/articles/nbt.4235 for the paper and https://github.com/google/deepvariant for the code.
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[D] Is deep learning having an impact in life sciences yet?
Deepvariant is a another example.
What are some alternatives?
Biopython - Official git repository for Biopython (originally converted from CVS)
galaxy - Data intensive science for everyone.
dash - Data Apps & Dashboards for Python. No JavaScript Required.
masurca
scanpy - Single-cell analysis in Python. Scales to >1M cells.
transformers - 🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.
af2complex - Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
slivar - genetic variant expressions, annotation, and filtering for great good.
nni - An open source AutoML toolkit for automate machine learning lifecycle, including feature engineering, neural architecture search, model compression and hyper-parameter tuning.
DnaChisel - :pencil2: A versatile DNA sequence optimizer