long read RNA-seq quantification
☆105Feb 4, 2026Updated 3 weeks ago
Alternatives and similar repositories for oarfish
Users that are interested in oarfish are comparing it to the libraries listed below
Sorting:
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆72Dec 14, 2025Updated 2 months ago
- A local-haplotagging-based small and structural variant caller☆95Updated this week
- A Rust library and command line tool for working with genomic ranges and their data.☆100May 29, 2024Updated last year
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆204Feb 23, 2026Updated last week
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- The Isoforms from Single-Cell; Long-read Expression Suite☆38Jan 14, 2025Updated last year
- Isoform-level functional RNA-Seq analysis 🧬☆36Nov 12, 2025Updated 3 months ago
- HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of …☆240Feb 3, 2026Updated last month
- Technology agnostic long read analysis pipeline for transcriptomes☆156Jan 25, 2024Updated 2 years ago
- A *fast* tool for BAM/CRAM quality evaluation, intended for long reads☆172Feb 11, 2026Updated 2 weeks ago
- ☆20Oct 5, 2022Updated 3 years ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- Iterate over minimizers of a DNA sequence☆31Jul 12, 2024Updated last year
- A program for the analysis of single cell nanopore long read data☆20Jul 1, 2025Updated 8 months ago
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆227Feb 20, 2026Updated last week
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆252Feb 24, 2026Updated last week
- The Flexible Demultiplexer☆40Updated this week
- an API for intersections of genomic data☆143Updated this week
- ☆13May 27, 2025Updated 9 months ago
- Flexible and efficient parsing, interpreting and editing of sequencing reads☆45Dec 8, 2025Updated 2 months ago
- lossless nanopore pod5 <=> s/blow5 file conversion☆46Feb 3, 2026Updated last month
- Feature-rich Python implementation of the tximport package for gene count estimation.☆43Updated this week
- End-guided RNA assembler☆15Dec 2, 2025Updated 3 months ago
- ☆34Nov 14, 2025Updated 3 months ago
- SingleCell Nanopore sequencing data analysis☆64May 30, 2025Updated 9 months ago
- A high-performance BigWig and BigBed library in Rust☆112Feb 13, 2026Updated 2 weeks ago
- Bam Error Stats Tool (best): analysis of error types in aligned reads.☆140Feb 14, 2025Updated last year
- Invertory of TE-gene isoforms☆14Sep 18, 2023Updated 2 years ago
- Ultra-efficient and sensitive method to search for Open Reading Frames in spliced genomes guided by reference annotation to maximize prot…☆43Dec 30, 2025Updated 2 months ago
- Genome browser and variant annotation☆389Oct 30, 2025Updated 4 months ago
- 🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies☆122Feb 24, 2026Updated last week
- Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics☆51Nov 20, 2025Updated 3 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆65Oct 11, 2024Updated last year
- Rust package for constructing and analyzing phylogenies. (unpolished & unmaintained)☆15May 1, 2025Updated 10 months ago
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆19Jan 22, 2026Updated last month
- bioinformatics toolkit in rust☆98Feb 15, 2026Updated 2 weeks ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆35Oct 27, 2025Updated 4 months ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Apr 23, 2025Updated 10 months ago
- Mabs, a genome assembly tool that optimizes parameters of Hifiasm and Flye☆35Dec 24, 2025Updated 2 months ago