All pairs search and sequence clustering
☆102Jun 14, 2022Updated 4 years ago
Alternatives and similar repositories for starcode
Users that are interested in starcode are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- This bartender version could handle arbitrary length of barcode☆34Sep 24, 2026Updated 3 weeks ago
- Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.☆40Jun 6, 2023Updated 3 years ago
- Tools for generating and decoding error-correcting DNA barcodes☆15Feb 15, 2022Updated 4 years ago
- Adaptive semi-global banded alignment on string graphs☆66May 4, 2018Updated 8 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Mar 3, 2017Updated 9 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Pipeline for poreathon☆14Dec 17, 2014Updated 11 years ago
- Fast and memory-efficient sequencing error corrector☆96Jan 4, 2026Updated 9 months ago
- Rust crate with bindings and interface to the SPOA library for generating consensus sequences.☆13Apr 16, 2019Updated 7 years ago
- Rapid competitive read demulitplexer. Made with tries.☆23Updated this week
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆16Aug 1, 2026Updated 2 months ago
- SIMD partial order alignment tool/library☆186Updated this week
- Sample an approximate number of reads from a fastq file without reading the entire file☆11Jun 20, 2017Updated 9 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆113Jun 19, 2026Updated 3 months ago
- [DEPRECATED] MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers☆22Aug 13, 2026Updated 2 months ago
- 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.
- Debarcer: A package for De-Barcoding and Error Correction of sequencing data containing molecular barcodes☆15Apr 28, 2021Updated 5 years ago
- Software for error-tolerant coding of information into DNA sequences using finite-state transducers.☆12Jan 8, 2017Updated 9 years ago
- AmpliCI, a model-based algorithm for denoising Illumina amplicon data.☆25Nov 28, 2025Updated 10 months ago
- Rapid Mapping-based Isoform Quantification from RNA-Seq Reads☆127Jun 9, 2022Updated 4 years ago
- [IMPORTANT: not for real data analysis, only for algorithm evaluation] fast and accurate alignment tool for PacBio and Nanopore long read…☆125Sep 10, 2018Updated 8 years ago
- HiC-Reg is a tool to predict Hi-C contact counts from one-dimensional regulatory signals☆11Aug 25, 2020Updated 6 years ago
- ☆19Jul 15, 2026Updated 3 months ago
- Biopsy - the Bioinformatic Optimisation System☆16Nov 1, 2015Updated 10 years ago
- ☆26Oct 15, 2020Updated 6 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- C++ library for analysing and storing large-scale cohorts of sequence variant data☆17Aug 27, 2019Updated 7 years ago
- The 3rd incarnation of the Wise package for sequence analysis☆23Jun 19, 2014Updated 12 years ago
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆33Jun 24, 2024Updated 2 years ago
- GpC methylation from fast5:s to reference anchored calls☆10Nov 18, 2020Updated 5 years ago
- Genomics database manager☆25Mar 3, 2014Updated 12 years ago
- Smith-Waterman database searches with inter-sequence SIMD parallelisation☆61Oct 2, 2026Updated 2 weeks ago
- Q ChIP-seq peak caller☆18Jul 17, 2024Updated 2 years ago
- Scripts and notebooks used in Akgol Oksuz et al. paper☆12Jan 18, 2021Updated 5 years ago
- A pipeline to assess the quantification of transcripts.☆19Jun 6, 2022Updated 4 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Python interface for SIMD Smith-Waterman Library☆37May 18, 2022Updated 4 years ago
- Blastocyst-like structures generated from human pluripotent stem cells☆13Sep 25, 2022Updated 4 years ago
- RNA-Skim: a rapid method for RNA-Seq quantification at transcript level☆19Sep 3, 2017Updated 9 years ago
- Python bindings to minimap2☆16Sep 18, 2017Updated 9 years ago
- picking up low allelic-fraction, somatic variants from tumor samples☆14Jan 4, 2018Updated 8 years ago
- Single-Cell RNA-seq pseudo-aligner☆53May 6, 2024Updated 2 years ago
- Variant Calling and Postfiltering☆11Jan 9, 2017Updated 9 years ago