rki-mf1 / breakfastView external linksLinks
breakfast is a simple and fast tool for clustering SARS-CoV-2 genomes using precalculated sequence features (e.g. nucleotide substitutions).
☆11Jul 10, 2025Updated 7 months ago
Alternatives and similar repositories for breakfast
Users that are interested in breakfast are comparing it to the libraries listed below
Sorting:
- Wrapper to read fast5, slow5, blow5 and pod5 files.☆13Mar 26, 2025Updated 10 months ago
- End-to-end simulation of nanopore sequencing signals with feed-forward transformers☆17Nov 17, 2025Updated 2 months ago
- Small pipeline to cluster viral genomes based on their k-mer content. WiP☆18Feb 3, 2026Updated last week
- fast sequence evolution simulation for SARS-CoV-2 and similar☆23Apr 11, 2025Updated 10 months ago
- Analysis pipeline for RNA structural probing mutational profiling data sequenced on Nanopore devices☆10Feb 10, 2024Updated 2 years ago
- A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference☆41Updated this week
- XCDF: eXplicitly Compacted Data Format. See documentation at Read the Docs:☆15Dec 18, 2023Updated 2 years ago
- For when you just need a coverage plot.☆11Mar 26, 2021Updated 4 years ago
- Bulk and single-cell Multi-Omics ground truth Simulator in R☆10Updated this week
- Single Cell Segmentation☆15May 15, 2020Updated 5 years ago
- Codes and results from ONT dRNA benchmarking☆11Nov 28, 2023Updated 2 years ago
- Python library for identification and masking of low-complexity regions in nucleotide sequences☆10Jan 23, 2026Updated 3 weeks ago
- Generate nutritionally complete diets, optimized by price or weight☆10Jun 21, 2022Updated 3 years ago
- ☆11Aug 21, 2019Updated 6 years ago
- A bash/biobash library for workflow and pipeline design☆10Jul 2, 2025Updated 7 months ago
- abi2fastq is a small utility to convert Sanger sequencing reads in .abi (applied biosystems) format to FASTQ☆11Sep 19, 2017Updated 8 years ago
- The Dinucleotide Quantification Python Package☆11Mar 12, 2022Updated 3 years ago
- Intelligent and cost-effective bidding on cloud computing instances for bioinformatics pipelines.☆13Dec 8, 2017Updated 8 years ago
- Private, browser-based placement of genome sequences on phylogenetic trees using UShER.☆11Nov 22, 2024Updated last year
- ☆11Jun 29, 2014Updated 11 years ago
- A de novo modification detection tool that targets current features based on 004kit for prokaryotes☆22Jul 15, 2025Updated 6 months ago
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Apr 5, 2022Updated 3 years ago
- Sequencing analysis pipeline☆15Dec 12, 2025Updated 2 months ago
- Arduino-AVR -> Professional ARM project migration with CLion☆10Sep 2, 2020Updated 5 years ago
- DIAMOND online documentation☆10Sep 2, 2020Updated 5 years ago
- Repository of standardized biological experimental data and metadata☆16Jan 9, 2025Updated last year
- A fully convolutional architecture for basecalling nanopore RNA sequencing data☆11Sep 26, 2024Updated last year
- SARS-CoV-2 workflow for nanopore sequence data☆42Dec 15, 2025Updated last month
- Datasets used in the tox21 challenge☆11Nov 6, 2019Updated 6 years ago
- Keras-1D-ACGAN-Data-Augmentation☆14May 11, 2021Updated 4 years ago
- A Python library for generating random phylogenetic trees and related data☆13Jul 4, 2022Updated 3 years ago
- curated list of seminal reviews and papers in synthetic biology☆13Jun 8, 2017Updated 8 years ago
- Source code for the DeepViral paper☆10Mar 17, 2021Updated 4 years ago
- Scripts to build high-quality genome-scale metabolic model by using a deep neural network to guide gapfilling☆18Mar 18, 2025Updated 10 months ago
- ☆13Jan 7, 2026Updated last month
- R package for nucleotide conversion sequencing data analysis☆16Jan 13, 2026Updated last month
- ☆13Nov 1, 2022Updated 3 years ago
- sAIS (Server-AIS), a self-reporting service for Garmin/DeLorme inReach/Explorer devices☆11Jan 3, 2023Updated 3 years ago
- Giraffe_View is designed to help assess and visualize the accuracy of long-read sequencing datasets.☆13Sep 3, 2024Updated last year