Repositories list

• MtbExporter

  Public
  Java

  •

  GNU Affero General Public License v3.0

  •0•2•1•10•Updated Oct 9, 2025Oct 9, 2025

• bam-matcher

  Public
  Python

  •

  Creative Commons Attribution 4.0 International

  •1•0•0•4•Updated Oct 8, 2025Oct 8, 2025

• MIRACUM-Pipe

  Public
  Whole exome sequencing pipeline including advanced variant annotation features and automated PDF reporting.

  R

  •

  GNU Affero General Public License v3.0

  •15•1•0•0•Updated Mar 21, 2025Mar 21, 2025

• MMRd

  Public
  Predicting MMR status based on Albayrak et al. (2020)

  R

  •1•0•0•0•Updated Oct 30, 2024Oct 30, 2024

• sequenza

  Public
  ❗ This is a read-only mirror of the CRAN R package repository. sequenza — Copy Number Estimation from Tumor Genome Sequencing Data. Homepage: https://sequenzatools.bitbucket.io, Mailing list: https://groups.google.com/forum/#!forum/sequenza-user-group Report bugs for this package: https://bitbucket.org/sequenzatools/sequenza/issues

  R

  •8•1•0•0•Updated Feb 6, 2024Feb 6, 2024

• cbioportal-core

  Public
  Legacy cBioPortal Core

  Java

  •22•0•0•0•Updated Feb 2, 2024Feb 2, 2024

• MIRACUM-Pipe-singularity

  Public
  MIRACUM-Pipe is a whole exome and panel sequencing pipeline for precision oncology (https://github.com/AG-Boerries/MIRACUM-Pipe). This repository is a port of the pipeline running inside a singularity container.

  bioinformaticsngsomics+ 4omics-pipelineprecision-oncologymedical-informatics-initiativemiracum

  R

  •

  GNU Affero General Public License v3.0

  •1•4•0•0•Updated Oct 24, 2023Oct 24, 2023

• copynumber

  Public
  R

  •0•0•0•0•Updated Oct 20, 2023Oct 20, 2023

• vep

  Public
  Recipe for VEP + Cache

  5•2•0•0•Updated Sep 29, 2023Sep 29, 2023

• HowTos

  Public
  Manuals and examples

  Python

  •1•2•0•0•Updated Sep 22, 2022Sep 22, 2022

• 2022_canine_atopic_dermatitis_paper

  Public
  R

  •1•1•0•0•Updated Jun 29, 2022Jun 29, 2022

• bamsnap

  Public
  HTML

  •

  MIT License

  •28•0•0•0•Updated Nov 24, 2021Nov 24, 2021

• NGS-tools-and-scripts

  Public
  R

  •2•0•0•0•Updated Jan 22, 2021Jan 22, 2021

• TF_enrichment_analysis

  Public
  COVIDomics paper: Transcription factor activity network

  R

  •3•0•0•0•Updated Nov 13, 2020Nov 13, 2020

• Egyptref

  Public
  Scripts and pipelines used in the generation of "An Egyptian Genome Reference"

  Perl

  •1•1•0•0•Updated Jun 22, 2020Jun 22, 2020

• lied_egypt_genome

  Public
  Python

  •2•0•0•0•Updated Jun 19, 2020Jun 19, 2020

• 2020_population_genetics

  Public
  Python

  •2•0•0•0•Updated Jun 19, 2020Jun 19, 2020

• awesome-deepbio

  Public
  A curated list of awesome deep learning applications in the field of computational biology

  313•1•0•0•Updated Jul 30, 2018Jul 30, 2018

• NGS_tools

  Public
  Collection of tools for next generation sequencing analysis

  GNU General Public License v3.0

  •2•0•0•0•Updated May 29, 2018May 29, 2018

• usefulStuff

  Public
  Collection of useful links

  2•0•0•0•Updated Apr 11, 2018Apr 11, 2018