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Top 19 Sequence Open-Source Projects
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InfluxDB
Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
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PrimeTween
PrimeTween is a high-performance, allocation-free animation library for Unity. Animate anything with just one line of code, tweak all animation properties directly from the Inspector, and create complex animation sequences. No runtime memory allocations, ever.
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DNABERT
DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
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WorkOS
The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.
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bioconvert
Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
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iter
Simple iterator abstract datatype, intended to iterate efficiently on collections while performing some transformations. (by c-cube)
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mdiff
Package for finding difference between two input sequences with ability to detect sequence elements displacements.
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SaaSHub
SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives
I've been thinking to learn Rust for these use cases, but always get frustrated with the complexity.
I find Go is a great middle-ground though! And now there starts to be a few more bio-related tools and toolkits out there, including:
- https://github.com/vertgenlab/gonomics
- https://github.com/biogo/biogo
- https://github.com/shenwei356/bio
... except from there being some really popular bio tools written in Go, like:
- https://github.com/shenwei356/seqkit
Project mention: dotween VS PrimeTween - a user suggested alternative | libhunt.com/r/dotween | 2023-09-28PrimeTween is a high-performance, allocation-free animation library for Unity. Animate anything with just one line of code, tweak all animation properties directly from the Inspector, and create complex animation sequences. No runtime memory allocations, ever.
If I want to get started, they said it's optional to pre-train (so you can skip to step 3). This is where I got tripped up: "Note that the sequences are in kmer format, so you will need to convert your sequences into that." From what I understand, you need to do this so that all of the sequences are the same length? So kmer=6 means all of the sequences are length 6? Someone suggested that I take the first nucleotide in the promoter and grab 3 nucleotides before and 3 nucleotides after (+/-3 bases). I don't think that's how the kmer thing works though? I tried replicating how I think it works down below (I got confused on the last row of the 'after' df). Please correct me if I'm wrong!
I've been thinking to learn Rust for these use cases, but always get frustrated with the complexity.
I find Go is a great middle-ground though! And now there starts to be a few more bio-related tools and toolkits out there, including:
- https://github.com/vertgenlab/gonomics
- https://github.com/biogo/biogo
- https://github.com/shenwei356/bio
... except from there being some really popular bio tools written in Go, like:
- https://github.com/shenwei356/seqkit
Project mention: Been working on an OSINT Tool aggregator that now has 350+ OSINT Tools, AI Search Engines, and ChatGPT Combined | /r/OSINT | 2023-06-30
Project mention: Swift Package was coded by ChatGPT, including the README | news.ycombinator.com | 2024-01-28
NOTE:
The open source projects on this list are ordered by number of github stars.
The number of mentions indicates repo mentiontions in the last 12 Months or
since we started tracking (Dec 2020).
Sequence related posts
- A look at the Mojo language for bioinformatics
- Been working on an OSINT Tool aggregator that now has 350+ OSINT Tools, AI Search Engines, and ChatGPT Combined
- Discover the Power of OSINT: 350+ Integrated Tools for Passive Online Investigation and Analysis
- OSINT tool that searches multiple different databases?
- Looking to reduce digital pressence
- Cylect.io | Ultimate OSINT Search Engine
- Cylect.io | Ultimate OSINT Search Engine
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A note from our sponsor - WorkOS
workos.com | 30 Apr 2024
Index
What are some of the best open-source Sequence projects? This list will help you:
| Project | Stars | |
|---|---|---|
| 1 | swift-collections | 3,514 |
| 2 | seqkit | 1,202 |
| 3 | period | 714 |
| 4 | PrimeTween | 650 |
| 5 | DNABERT | 543 |
| 6 | Smile | 508 |
| 7 | sequitur | 402 |
| 8 | bioconvert | 351 |
| 9 | unicode-emoji | 142 |
| 10 | iter | 117 |
| 11 | bio | 88 |
| 12 | dotted-logootsplit | 52 |
| 13 | stream | 32 |
| 14 | mdiff | 31 |
| 15 | react-sequence-animator | 24 |
| 16 | OOK_Audio | 12 |
| 17 | seq-datasource-v2 | 10 |
| 18 | de-bruijn-generator | 2 |
| 19 | TaskSequencer | 2 |
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