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Top 5 Python Sequence Projects
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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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mdiff
Package for finding difference between two input sequences with ability to detect sequence elements displacements.
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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.
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!
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
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A note from our sponsor - InfluxDB
www.influxdata.com | 28 Apr 2024
Index
What are some of the best open-source Sequence projects in Python? This list will help you:
Project | Stars | |
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1 | DNABERT | 543 |
2 | sequitur | 402 |
3 | bioconvert | 351 |
4 | mdiff | 31 |
5 | OOK_Audio | 12 |
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