machine-readable file format for genomic library sequence and structure
☆130Jun 19, 2026Updated last week
Alternatives and similar repositories for seqspec
Users that are interested in seqspec are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Flexible and efficient parsing, interpreting and editing of sequencing reads☆46Dec 8, 2025Updated 6 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆128Jun 22, 2026Updated last week
- Collections of library structure and sequence of popular single cell genomic methods☆502Apr 16, 2026Updated 2 months ago
- Finding gene expression states in scRNA-seq data☆52Mar 22, 2024Updated 2 years ago
- ☆20May 24, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A pipeline creation tool using Snakemake☆14Jun 8, 2026Updated 3 weeks ago
- An end-to-end computational pipeline for large Perturb-seq screens☆15Apr 25, 2025Updated last year
- A high-performance BigWig and BigBed library in Rust☆117Jun 7, 2026Updated 3 weeks ago
- ☆13Jun 15, 2024Updated 2 years ago
- Repository for the paper "The impact of package selection and versioning on single-cell RNA-seq analysis"☆21Nov 27, 2025Updated 7 months ago
- Biological sequence analysis for the modern age.☆299Updated this week
- Rust UMI Directional Adjacency Deduplicator☆15Nov 25, 2019Updated 6 years ago
- A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.☆85Jun 5, 2026Updated 3 weeks ago
- Repository for RecallME-v.0.1 a variant calling pipelines benchmarker and optimizer☆13Dec 18, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- genes and genomes at your fingertips☆412Jun 9, 2026Updated 3 weeks ago
- 🧬 gget enables efficient querying of genomic reference databases☆1,169Updated this week
- Fast FASTQ sample demultiplexing in Rust.☆70Jun 18, 2026Updated last week
- vcfdist: Accurately benchmarking phased variant calls☆87Feb 23, 2026Updated 4 months ago
- Annotated multivariate observation data in R☆53Apr 1, 2026Updated 2 months ago
- Bayesian analysis of MPRA and other high-throughput genomic assays☆10Jul 27, 2020Updated 5 years ago
- Python and R SOMA APIs using TileDB’s cloud-native format. Ideal for single-cell data at any scale.☆127May 25, 2026Updated last month
- A tool to find sequencing data and metadata from public databases.☆600Aug 13, 2024Updated last year
- Epigenomics Program pipeline to analyze SHARE-seq data.☆23Mar 30, 2025Updated last year
- 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.
- A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.☆68Apr 5, 2024Updated 2 years ago
- Utilities for large scale distributed single cell data processing☆24Jan 20, 2026Updated 5 months ago
- Tools for working with BUS files☆102May 27, 2025Updated last year
- ☆17Jan 6, 2025Updated last year
- Location of public benchmarking; primarily final results☆18Feb 17, 2025Updated last year
- overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites☆34Jun 6, 2025Updated last year
- a minimal, scriptable genome browser for python☆54Dec 20, 2024Updated last year
- kallisto index tag extractor☆19Jul 6, 2019Updated 6 years ago
- Single-cell epigenomics analysis tools☆321Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- AnnData interoperability in R☆188Updated this week
- Gene Expression Decomposition and Integration☆21Feb 9, 2026Updated 4 months ago
- A flexible and fast sgRNA counter from FASTQ Files☆11Jun 17, 2026Updated last week
- Download FASTQ files from SRA or ENA repositories.☆391May 16, 2026Updated last month
- This tools counts the number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to comp…☆32Nov 25, 2024Updated last year
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆192Mar 27, 2025Updated last year
- 🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transc…☆209Jun 8, 2026Updated 3 weeks ago