Long-read splice alignment with high accuracy
☆64Sep 26, 2024Updated last year
Alternatives and similar repositories for ultra
Users that are interested in ultra are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Two pass alignment for long reads☆22Mar 9, 2021Updated 5 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆32Feb 15, 2021Updated 5 years ago
- Improved long-read assembly by preserving contained reads☆30Aug 22, 2024Updated last year
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆11May 12, 2025Updated 11 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆70Aug 30, 2022Updated 3 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.
- Long read aligner☆114May 26, 2023Updated 2 years ago
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆73Jan 31, 2024Updated 2 years ago
- A Python library to visualize and analyze long-read transcriptomes☆69Jan 19, 2026Updated 3 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Sep 5, 2022Updated 3 years ago
- Linear-time de novo Long Read Assembler☆41Mar 19, 2026Updated last month
- long read RNA-seq quantification☆111Mar 16, 2026Updated last month
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆263Updated this week
- longcallR is a tool for SNP calling, haplotype phasing, and allele-specific analysis with long-read RNA-seq data.☆92Apr 16, 2026Updated 3 weeks ago
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- 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.
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆182Apr 12, 2023Updated 3 years ago
- Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)☆49Apr 20, 2026Updated 2 weeks ago
- CPANG19 - Computational PANGenomics (2019)☆12May 7, 2020Updated 6 years ago
- Transcript assembly and quantification for RNA-Seq☆509Dec 26, 2025Updated 4 months ago
- JTK -- a regional diploid genome assembler☆26Apr 22, 2026Updated 2 weeks ago
- TSEBRA: Transcript Selector for BRAKER☆49Apr 7, 2026Updated last month
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆33Aug 18, 2025Updated 8 months ago
- ☆12Mar 21, 2026Updated last month
- 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.
- LongcallD: joint calling and phasing of small, structural and mosaic variants from long reads☆104Apr 8, 2026Updated last month
- Ploidy agnostic phasing pipeline and algorithm☆49Jan 3, 2024Updated 2 years ago
- Fast and accurate coordinate conversion between assemblies☆119Oct 9, 2025Updated 6 months ago
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Apollo is an assembly polishing algorithm that attempts to correct the errors in an assembly. It can take multiple set of reads in a sing…☆28May 10, 2020Updated 5 years ago
- Bidirectional WFA (Paper)☆49May 20, 2024Updated last year
- a broadly applicable tool for automated gene identification and retrieval☆41Apr 13, 2026Updated 3 weeks ago
- Align subreads to ccs reads☆14Jun 11, 2025Updated 10 months ago
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆19Apr 29, 2026Updated last week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- PopSTR - A Population based microsatellite genotyper☆32Oct 23, 2023Updated 2 years ago
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- Codes for the Iso-Seq variant-calling paper☆11Apr 28, 2023Updated 3 years ago
- Show pangenome graphs in an easy way☆59Aug 7, 2025Updated 9 months ago
- Hybrid error correction of long reads using colored de Bruijn graphs☆108Jan 17, 2026Updated 3 months ago
- Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …☆52Apr 30, 2026Updated last week
- A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long…☆67Jul 23, 2020Updated 5 years ago