Snakemake workflow management system and CLI generation tool
☆67Oct 22, 2025Updated 7 months ago
Alternatives and similar repositories for snk
Users that are interested in snk are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆30Updated this week
- Genome size estimation from long read overlaps☆90May 1, 2026Updated 3 weeks ago
- µbinfie blog☆19Jul 21, 2025Updated 10 months ago
- ☆15Feb 10, 2025Updated last year
- Host depletion optimised for clinical metagenomic sequencing applications☆18May 18, 2026Updated last week
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- ☆10Jun 9, 2025Updated 11 months ago
- Real time monitor for snakemake☆17May 19, 2026Updated last week
- 🦠🧬🧑💻📇 Microbial genomes-to-report pipeline☆74Mar 14, 2026Updated 2 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆41Mar 31, 2026Updated last month
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆39Feb 20, 2026Updated 3 months ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆21Dec 9, 2025Updated 5 months ago
- The uncompromising Snakemake code formatter☆190May 19, 2026Updated last week
- Efficient phylogenetic tree inference for massive taxonomic datasets☆142Apr 6, 2025Updated last year
- Simple Manipulation Of Trees☆13Aug 16, 2025Updated 9 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Cookiecutter profile for making a Snakemake-based bioinformatics tool, but without the fluff☆52Oct 17, 2023Updated 2 years ago
- Bifrost graph gene caller.☆98Apr 12, 2026Updated last month
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆20Nov 24, 2024Updated last year
- Precise host read removal☆123Apr 13, 2026Updated last month
- Creating alignment plots from bam files☆128Apr 15, 2026Updated last month
- blastn2dotplots: multiple dot-plot visualizer☆24Sep 15, 2025Updated 8 months ago
- software to identify primers that can distinguish genomes☆20Jan 23, 2026Updated 4 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆107May 6, 2026Updated 2 weeks ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Jun 26, 2018Updated 7 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- A DRAFT, early stage book on snakemake.☆22Nov 1, 2023Updated 2 years ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆41Apr 17, 2024Updated 2 years ago
- SEER, reimplemented in python 🐍🔮☆133Mar 24, 2026Updated 2 months ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- A TUI for monitoring Snakemake workflows in real-time.☆61Mar 13, 2026Updated 2 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆252May 13, 2026Updated last week
- Bioinformatics tool for Locus Visualisation☆166Mar 30, 2026Updated last month
- Plasmid analysis using rearrangement distances☆55May 13, 2026Updated last week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆50Mar 23, 2026Updated 2 months ago
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆39Apr 7, 2026Updated last month
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 9 months ago
- Better Alignments with Translated HMMER☆25May 15, 2026Updated last week
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆21Dec 12, 2024Updated last year
- Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.☆177Apr 6, 2026Updated last month