NanoSim
bonito
Our great sponsors
NanoSim | bonito | |
---|---|---|
1 | 8 | |
213 | 372 | |
3.3% | 1.6% | |
5.6 | 7.3 | |
about 2 months ago | 5 months ago | |
Python | Python | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 or later |
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.
NanoSim
-
Raw nanowire sequencer data
Alternatively, you can make your own data using NanoSim. I haven't used it myself yet but it generates signal level files with similar error profiles to the real thing. https://github.com/bcgsc/NanoSim
bonito
-
miRNA Detection
There is a technology called Nanopore. I’ve never used it myself but the concept was to be able to sequence samples of nucleic acid out in the field. A quick pubmed search indicated that it can detect miRNA, but maybe with some modifications. https://nanoporetech.com Best of luck with it!
-
Oxford University Press’s new logo is unfathomably bad
> An unpopular opinion: there are too many other logos that look like the original logo
There are also too many logos that look like the new logo. The first blue circle logos that spring to mind are Blue Circle Cement/Tarmac/Lafarge [1] and Oxford Nanopore [2].
[1]: https://en.wikipedia.org/wiki/Tarmac_(company)
[2]: https://nanoporetech.com/
- PORTABLE DNA SEQUENCER!!!!
-
Ask HN: Who is hiring? (May 2022)
Oxford Nanopore Technologies (https://nanoporetech.com/) | Front end developer | Full-time | Oxford | Remote (UK)
Oxford Nanopore Technologies is headquartered at the Oxford Science Park outside Oxford, UK, with satellite offices and commercial presence in many global locations across the US, APAC and Europe. Our DNA/RNA sequencing platform is the only technology that offers real-time analysis (for rapid insights), in fully scalable formats from pocket to population scale. Our goal is to enable the analysis of any living thing, by anyone, anywhere.
Tech stack: Electron, Stencil, React, Typescript, RxJS, GRPC
For more details, please email: [email protected]
- El primer genoma completo de un ser humano abre una nueva era en la ciencia
-
Buying artificial membranes
Ok this isn't really my area but I know that there are labs/companies performing these types of electrical current disturbance measurements of membrane-type proteins for both DNA sequencing (https://nanoporetech.com/) and protein sequencing (https://www.nature.com/articles/s41587-019-0401-y).
-
ELI5: Why home blood tests do not exist, while we can measure our sugar levels with personal devices at home?
Now nanopore sequencing is solid state and gets much longer reads. https://nanoporetech.com/ and https://en.wikipedia.org/wiki/Nanopore_sequencing
-
Raw nanowire sequencer data
Also best of luck with the basecaller, I will say that the latest guppy versions are very good, both in terms of accuracy and speed, as they are GPU accelerated and the best I've seen in accuracy. You may also be interested in Bonito, a tool to generate your own GPU basecalling model or tweak existing models to your data. https://github.com/nanoporetech/bonito.
What are some alternatives?
bioinformatics - Bioinformatic algorithms for the UCLA Bioinformatics Specialization
pytorch-tutorial - PyTorch Tutorial for Deep Learning Researchers
transformers - 🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.
fossa-cli - Fast, portable and reliable dependency analysis for any codebase. Supports license & vulnerability scanning for large monoliths. Language-agnostic; integrates with 20+ build systems.
yolov5 - YOLOv5 🚀 in PyTorch > ONNX > CoreML > TFLite
pipeline-structural-variation - Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
Real-Time-Voice-Cloning - Clone a voice in 5 seconds to generate arbitrary speech in real-time