Run shell commands in a scientifically reproducible and robust way
☆24Apr 23, 2026Updated 2 months ago
Alternatives and similar repositories for scicommander
Users that are interested in scicommander are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated 2 years ago
- Rapid & standardized genome annotation using protein structural information☆68Jun 25, 2026Updated last week
- Chimera: A Versatile Metagenomic Classification Tool☆21Feb 1, 2026Updated 5 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Phylogenetic Likelihood Library 2 - experimental☆11May 12, 2025Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated 2 years ago
- Fast and space-efficient taxonomic classification of long reads☆45Aug 25, 2025Updated 10 months ago
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆59Updated this week
- Reproducible research - Preparing code to be usable by you and others in the future☆35Mar 30, 2026Updated 3 months ago
- CLI tool for querying the Genome Taxonomy Database (GTDB). Batch search, genome cards, taxon lineages, and cross-release taxonomic compar…☆30Jun 9, 2026Updated 3 weeks ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆26Updated this week
- Plasmid analysis using rearrangement distances☆56May 28, 2026Updated last month
- Simple-to-use interactive comparison of two bacterial genomes☆28Jan 30, 2026Updated 5 months ago
- Minimum Bait Cover Toolkit Syotti.☆15Jan 22, 2025Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- GeomScale in Google Summer of Code 2024☆12Feb 1, 2024Updated 2 years ago
- Visualize genomic data using webgl and webworkers, in an effort to provide a fluid, high-performance user experience.☆11May 24, 2024Updated 2 years ago
- Paint genomes with taxa-specific k-mer probabilities☆16Apr 4, 2022Updated 4 years ago
- Modular job submitter for arbitrary pipelines or commands.☆26Apr 11, 2026Updated 2 months ago
- iFISH Probe Design: a Python3 package to build iFISH probes.☆12Mar 11, 2022Updated 4 years ago
- Overview of our data for microbial genomic benchmarking☆40Jun 19, 2026Updated 2 weeks ago
- Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API☆27Oct 20, 2023Updated 2 years ago
- Taxonomy classification of viral sequences / contigs☆12Jul 15, 2025Updated 11 months ago
- ☆14Dec 3, 2024Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Robust individual and aggregate checksums for nucleotide sequences☆17Mar 3, 2026Updated 4 months ago
- Repository for participants of the "Version control with git" training☆13Apr 9, 2026Updated 2 months ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆41Apr 17, 2024Updated 2 years ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆14Apr 8, 2024Updated 2 years ago
- Graph-based Decoding for In Situ Sequencing☆10Jul 2, 2020Updated 6 years ago
- Hierarchical binned indexed data store for on-disk genomic data.☆13Jan 18, 2025Updated last year
- Split Kmer Analysis☆66May 26, 2022Updated 4 years ago
- This package removes unwanted variation from raw sequencing count data using Negative Binomial and/or Zero Inflated Negative Binomial mod…☆18Jun 13, 2024Updated 2 years ago
- ☆22Feb 12, 2026Updated 4 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- syncmer graphs, and perhaps other sorts of sequence graphs☆41Jun 15, 2026Updated 2 weeks ago
- MetaCC allows scalable and integrative analyses of both long-read and short-read metagenomic Hi-C data☆12Mar 8, 2025Updated last year
- A comprehensive prokaryotic genome annotation pipeline☆88Jun 3, 2026Updated last month
- Iterate over minimizers of a DNA sequence☆33Jul 12, 2024Updated last year
- kaamer - protein identification based on amino acid kmers☆11Mar 7, 2023Updated 3 years ago
- Simulating paired-end short sequencing reads from circular and linear genomes☆16May 14, 2021Updated 5 years ago
- Tools for DLO HiC data analyze☆16Oct 31, 2022Updated 3 years ago