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@rnajena

RNA Bioinformatics and High-Throughput Analysis Jena

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  1. bertax bertax Public

    Taxonomic classification of DNA sequences

    Python 57 11

  2. poseidon poseidon Public

    PoSeiDon: positive selection detection and recombination analysis pipeline

    C 40 8

  3. vidhop vidhop Public

    VIDHOP is a virus host predicting tool. Its able to predict influenza A virus, rabies lyssavirus and rotavirus A.

    Python 23 9

  4. viralclust viralclust Public

    Small pipeline to cluster viral genomes based on their k-mer content. WiP

    Nextflow 21 5

  5. EpiDope EpiDope Public

    Prediction of B-cell epitopes from amino acid sequences using deep neural networks.

    Python 18 7

  6. read5 read5 Public

    Wrapper to read fast5, slow5, blow5 and pod5 files.

    Python 13 1

Repositories

Showing 10 of 30 repositories
  • bayhunter Public

    BayHunter: A Bayesian approach to inferring the differential expression of small RNAs from read counts

    rnajena/bayhunter's past year of commit activity
    0 0 0 0 Updated Sep 9, 2026
  • sugar Public

    S*R -- Sequence and Annotation Toolkit for Python

    rnajena/sugar's past year of commit activity
    Python 6 MIT 1 0 0 Updated Sep 9, 2026
  • AssayBLAST Public

    In silico analysis of PCR oligos

    rnajena/AssayBLAST's past year of commit activity
    Python 4 MIT 0 0 0 Updated Sep 2, 2026
  • assayblast_paper Public

    Results and code to reproduce results from the AssayBLAST v2 publication

    rnajena/assayblast_paper's past year of commit activity
    Python 1 0 0 0 Updated Sep 2, 2026
  • workshop_gcb2026_webapps Public

    Turning Python scripts built with Sugar into web apps

    rnajena/workshop_gcb2026_webapps's past year of commit activity
    Python 0 0 0 0 Updated Aug 27, 2026
  • dynamont Public

    Dynamont is a bioinformatics tool for segmenting/resquiggling Oxford Nanopore Technologies (ONT) sequencing signals using dynamic programming and HMM-based approaches. It is designed to align raw nanopore signals to nucleotide sequences and supports DNA and RNA datasets.

    rnajena/dynamont's past year of commit activity
    Python 7 GPL-3.0 1 0 1 Updated Aug 20, 2026
  • viralclust Public

    Small pipeline to cluster viral genomes based on their k-mer content. WiP

    rnajena/viralclust's past year of commit activity
    Nextflow 21 GPL-3.0 5 8 0 Updated Jul 3, 2026
  • magnipore Public

    Magnipore: Differential single nucleotide changes of ONT signals

    rnajena/magnipore's past year of commit activity
    Red 6 GPL-3.0 0 0 0 Updated Jun 23, 2026
  • SweetSynteny Public
    rnajena/SweetSynteny's past year of commit activity
    Python 5 MIT 1 0 0 Updated May 11, 2026
  • diffMONT Public

    diffMONT is a python-based tool for predicting methylation-specific PCR (MSP) primers, based on Nanopore sequencing data. Given mutliple bedmethyl files, diffMONT detects methylation specific PCR primer regions, which can distinguish between two groups of samples (originally cancer patients vs. healthy controls).

    rnajena/diffMONT's past year of commit activity
    Python 3 MIT 0 0 0 Updated Apr 2, 2026
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