Top 9 rna Open-Source Projects

• graphein

  2 980 7.8 Jupyter Notebook

  Protein Graph Library

• rnaseq

  14 780 9.4 Nextflow

  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

  

Project mention: R pipelines for bulk RNA-seq analyses | /r/bioinformatics | 2023-12-09

• InfluxDB

  www.influxdata.com featured

  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.

  

• barrnap

  5 205 0.0 Perl

  :microscope: :leo: Bacterial ribosomal RNA predictor

Project mention: Any tools recommended for extracting 16S rDNA from a de novo assembled genome? | /r/bioinformatics | 2023-06-14

https://github.com/tseemann/barrnap this is what you’re looking for

• nextclade

  2 199 9.8 TypeScript

  Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement

  

Project mention: Why does musl make my Rust code so slow? (2020) | news.ycombinator.com | 2023-12-12

• SPOT-RNA

  1 86 10.0 Perl

  RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.

Project mention: Can I get dot-bracket notation from a .bpseq file? | /r/bioinformatics | 2023-07-02

Hello. I'm playing around with the tool SPOT-RNA which generates `.bpseq`, `.ct`, and `.prob` files when given a `.fasta` file. Optionally, I can pass the tool `--plots True` to generate image files of the secondary structure, but I actually just want a text version of the secondary structure in dot-bracket notation. Is there a way to derive this format from one of the output files? I'm pretty new to biology (my background is software engineering and CS) so if there's something obvious, it's over my head.

• hlatyping

  1 52 0.0 Nextflow

  Precision HLA typing from next-generation sequencing data

  

• IntaRNA

  1 44 6.6 C++

  Efficient target prediction incorporating accessibility of interaction sites

  

• SaaSHub

  www.saashub.com featured

  SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives

  

• RNAlien

  0 14 0.0 Haskell

  RNAlien - unsupervised RNA family model construction

• rosalind

  1 0 3.4 Rust

  Bioinformatics library for DNA, RNA and protein sequence analysis. Based on the exercises of Rosalind website.

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• A note from our sponsor - SaaSHub
  www.saashub.com | 3 May 2024

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