ksahlin / ultraView external linksLinks
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
Sorting:
- Two pass alignment for long reads☆22Mar 9, 2021Updated 4 years ago
- Long read aligner☆114May 26, 2023Updated 2 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆32Feb 15, 2021Updated 5 years ago
- Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)☆47Sep 2, 2025Updated 5 months ago
- Improved long-read assembly by preserving contained reads☆30Aug 22, 2024Updated last year
- 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
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- A Python library to visualize and analyze long-read transcriptomes☆66Jan 19, 2026Updated 3 weeks ago
- Linear-time de novo Long Read Assembler☆41Oct 22, 2025Updated 3 months ago
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆72Jan 31, 2024Updated 2 years ago
- A local-haplotagging-based small and structural variant caller☆94Jan 14, 2026Updated last month
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆72Dec 14, 2025Updated 2 months ago
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆250Feb 6, 2026Updated last week
- TSEBRA: Transcript Selector for BRAKER☆49Nov 14, 2025Updated 3 months ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- JTK -- a regional diploid genome assembler☆25Oct 20, 2024Updated last year
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Show pangenome graphs in an easy way☆58Aug 7, 2025Updated 6 months ago
- Phasing reads with secondary alignments☆21Nov 30, 2024Updated last year
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆175Apr 12, 2023Updated 2 years ago
- Ploidy agnostic phasing pipeline and algorithm☆49Jan 3, 2024Updated 2 years ago
- CPANG19 - Computational PANGenomics (2019)☆12May 7, 2020Updated 5 years ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Sep 5, 2022Updated 3 years ago
- long read RNA-seq quantification☆102Feb 4, 2026Updated last week
- Unfazed by genomic variant phasing☆27May 26, 2024Updated last year
- A graph aligner☆30Sep 17, 2024Updated last year
- Simultaneous multi-sample transcript assembler for RNA-seq data☆18Dec 13, 2024Updated last year
- Fast and accurate coordinate conversion between assemblies☆118Oct 9, 2025Updated 4 months ago
- Transcript assembly and quantification for RNA-Seq☆487Dec 26, 2025Updated last month
- Version II of Mandalorion☆32Feb 1, 2019Updated 7 years ago
- Scaffolding with RNA-seq read alignment☆21Jul 10, 2018Updated 7 years ago
- a broadly applicable tool for automated gene identification and retrieval☆32Dec 6, 2024Updated last year
- Unzip assembly graphs with Hi-C data and/or long reads.☆27Sep 20, 2024Updated last year
- Scalable long read self-correction and assembly polishing with multiple sequence alignment☆54Feb 6, 2024Updated 2 years ago
- Hybrid error correction of long reads using colored de Bruijn graphs☆108Jan 17, 2026Updated 3 weeks 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
- PopSTR - A Population based microsatellite genotyper☆32Oct 23, 2023Updated 2 years ago
- ☆62Sep 15, 2025Updated 5 months ago