Tool for the Quality Control of Long-Read Defined Transcriptomes
☆280Aug 11, 2026Updated 3 weeks ago
Alternatives and similar repositories for SQANTI3
Users that are interested in SQANTI3 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆242Jun 24, 2026Updated 2 months ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆282Sep 26, 2023Updated 2 years ago
- A universal toolkit for upstream processing of long RNA reads☆237Updated this week
- Technology agnostic long read analysis pipeline for transcriptomes☆162Jan 25, 2024Updated 2 years ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆187Apr 12, 2023Updated 3 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.
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆255Updated this week
- Full-Length Alternative Isoform analysis of RNA☆256Updated this week
- A Python library to visualize and analyze long-read transcriptomes☆69Jan 19, 2026Updated 7 months ago
- SUPPA: Fast quantification of splicing and differential splicing☆307Nov 6, 2025Updated 9 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
- Visualizing transcript structure and annotation using ggplot2☆170Aug 24, 2024Updated 2 years ago
- Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project☆163Updated this week
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆284Jul 7, 2026Updated last month
- Long-read Isoform Quantification and Analysis☆41Mar 25, 2025Updated last year
- 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.
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆40Nov 8, 2023Updated 2 years ago
- Transcript assembly and quantification for RNA-Seq☆529Aug 9, 2026Updated 3 weeks ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Jun 14, 2020Updated 6 years ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- long read RNA-seq quantification☆123Aug 19, 2026Updated 2 weeks ago
- Full-length transcriptome splicing and mutation analysis☆94Mar 23, 2026Updated 5 months ago
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆585Updated this week
- Improving gene isoform quantification with miniQuant☆42Aug 14, 2026Updated 2 weeks ago
- LongSom tool for long-reads☆12May 20, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Constructing a pangenome gene graph☆212Aug 11, 2025Updated last year
- Version II of Mandalorion☆32Feb 1, 2019Updated 7 years ago
- Detection of m6A from direct RNA-Seq data☆133May 19, 2025Updated last year
- A genome completeness evaluation tool based on miniprot☆262Aug 17, 2026Updated 2 weeks ago
- ☆20Oct 5, 2022Updated 3 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆68Oct 11, 2024Updated last year
- longcallR is a tool for SNP calling, haplotype phasing, and allele-specific analysis with long-read RNA-seq data.☆96Aug 2, 2026Updated last month
- Align proteins to genomes with splicing and frameshift☆417Jan 5, 2026Updated 7 months ago
- Tool for globally phasing diploid assembly graphs with orthogonal data☆43Nov 25, 2024Updated last year
- 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.
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,244May 19, 2026Updated 3 months ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆186Mar 25, 2026Updated 5 months ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆243Dec 29, 2023Updated 2 years ago
- ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data☆20Apr 24, 2024Updated 2 years ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated 2 years ago
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆211Nov 23, 2025Updated 9 months ago
- Identification of differential RNA modifications from nanopore direct RNA sequencing☆168Aug 25, 2026Updated last week