Centre for Bioinformatics, University of Oslo

Centre for Bioinformatics, University of Oslo's repositories

immuneML

immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.

Language:PythonAGPL-3.058 13 16

compairr

Comparison of Adaptive Immune Receptor Repertoires

Language:C++AGPL-3.024 5 42

dagsim

A framework and specification language for simulating data based on graphical models

Language:PythonAGPL-3.016 7 3

crypt4gh

Crypt4GH standard implementation

Language:JavaMIT2 6 12

kmercount

Simple kmer counter using Bloom filter and efficient hash function

Language:C++AGPL-3.02 4 4

numpy_alignments

Simple Python module for efficient storing and comparison of mapped reads using numpy

Language:Python2 80

immuneml_tools

Galaxy tools using the immuneML conda package.

Language:Python1 110

machine_learning_in_comp_bio_exercises

These exercises are a part of the IN-BIOS5000 course at UiO, for the intro lectures on machine learning in computational biology.

Language:Jupyter Notebook1 50

pharmacoepi_simulation_workshop

The material for the simulation session at the (Epi)genetics in Pharmacoepidemiology workshop

Language:Jupyter Notebook1 50

sfb_knowledgebase

Knowledge base with links to relevant resources by the Centre for Bioinformatics, UiO.

Language:PythonCC-BY-4.01 7 2

statistical_genomics_exercises

Language:HTML1 50

SynthPwr

Synthetic framework for stress testing the parameters and statistical power of epigenetic power calculators

Language:PythonMIT1 60

VirMake is a Snakemake based pipeline that offers viral metagenic data analysis on paired-end data. It offers taxonomic and functional annotation, supports offline running and support for HPC cluster execution. It is made for Linux based systems and has been tested on SLURM cluster execution.

Language:PythonGPL-3.01 2 2