A genome browser in your Jupyter notebook
☆31May 12, 2025Updated 9 months ago
Alternatives and similar repositories for genomenotebook
Users that are interested in genomenotebook are comparing it to the libraries listed below
Sorting:
- Identifying ViRal and Circular content in metAgenomes☆14Dec 13, 2018Updated 7 years ago
- Reference-free variant discovery in large eukaryotic genomes☆42Jul 13, 2021Updated 4 years ago
- Resolving Species Level Classification Using Emu☆14Jun 14, 2024Updated last year
- Ancestral Sequence Reconstruction in Python☆14May 9, 2019Updated 6 years ago
- A database for signatures of public genomic sources☆18Jan 1, 2026Updated 2 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Mar 7, 2025Updated last year
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆37Feb 17, 2026Updated 2 weeks ago
- Detect contigs of complete circular genomes☆23Jun 6, 2019Updated 6 years ago
- Rapidly extract reads from a FASTQ file based on taxonomic classification via Kraken2.☆13Jan 26, 2026Updated last month
- Mycobacterium tuberculosis complex lineage typing☆10Jun 22, 2025Updated 8 months ago
- Bitpacked sequence trait and implementation☆16Feb 27, 2026Updated last week
- ☆11Feb 12, 2026Updated 3 weeks ago
- Sequence Bloom Trees with All/Some split☆11Oct 30, 2018Updated 7 years ago
- Predict prokaryotic hosts for phage (meta) genomic sequences☆11Apr 4, 2022Updated 3 years ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- Online material and code base for the article Coordinates and Intervals in Graph Based Reference Genomes☆11May 2, 2017Updated 8 years ago
- fast webservices based query tool for large sets of genomic features☆25May 10, 2025Updated 9 months ago
- The CRISPR assembler☆34May 13, 2021Updated 4 years ago
- Template for building a small workflow in Nextflow☆17May 2, 2022Updated 3 years ago
- Forensic analysis tool useful in backwards computing information from next-generation sequencing data.☆11Jan 20, 2026Updated last month
- A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.☆16Jul 25, 2016Updated 9 years ago
- Searching large collections of sequencing data with genome-scale queries☆17Feb 5, 2026Updated last month
- A tool to detect acquired AMR genes directly from long read sequencing data.☆20Jan 31, 2026Updated last month
- Visualize microbial evolution at the SNP level!☆15Aug 12, 2025Updated 6 months ago
- ☆15Jan 28, 2026Updated last month
- Strain-level haplotyping for metagenomes with short or long-reads.☆65Apr 10, 2025Updated 10 months ago
- Exposing public genomics data via computable and searchable metadata☆13Jul 9, 2024Updated last year
- gap opening realigner for BAM data streams☆18Oct 17, 2012Updated 13 years ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- Genomic Assemblies Merger for NGS☆26Nov 10, 2023Updated 2 years ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆21Dec 9, 2025Updated 3 months ago
- a comparative genome browser for bacteriophages☆20Jan 17, 2025Updated last year
- Python3 module for running MUMmer and reading the output☆34Mar 24, 2025Updated 11 months ago
- Bifrost graph gene caller.☆98Jan 20, 2026Updated last month
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- Download assembly files from NCBI☆13May 9, 2023Updated 2 years ago
- Polygenic score calculation from VCF in Nim.☆15Nov 22, 2020Updated 5 years ago
- A selection of short scripts for analyzing microbial genomes☆14Jun 26, 2018Updated 7 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago