Tool for the Quality Control of Long-Read Defined Transcriptomes
☆265May 19, 2026Updated this week
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☆237Jul 9, 2025Updated 10 months ago
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆225Updated this week
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆280Sep 26, 2023Updated 2 years ago
- Technology agnostic long read analysis pipeline for transcriptomes☆159Jan 25, 2024Updated 2 years ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆183Apr 12, 2023Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆243Updated this week
- Full-Length Alternative Isoform analysis of RNA☆252Updated this week
- A Python library to visualize and analyze long-read transcriptomes☆69Jan 19, 2026Updated 4 months ago
- SUPPA: Fast quantification of splicing and differential splicing☆300Nov 6, 2025Updated 6 months ago
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆73Jan 31, 2024Updated 2 years ago
- Visualizing transcript structure and annotation using ggplot2☆168Aug 24, 2024Updated last year
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆272Mar 15, 2026Updated 2 months ago
- Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project☆158Jan 23, 2026Updated 4 months ago
- Long-read Isoform Quantification and Analysis☆39Mar 25, 2025Updated last year
- 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.
- Full-length transcriptome splicing and mutation analysis☆91Mar 23, 2026Updated 2 months ago
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆36Nov 8, 2023Updated 2 years ago
- Transcript assembly and quantification for RNA-Seq☆512Dec 26, 2025Updated 4 months ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Jun 14, 2020Updated 5 years ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- long read RNA-seq quantification☆112Mar 16, 2026Updated 2 months ago
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆569Updated this week
- LongSom tool for long-reads☆12May 20, 2025Updated last year
- Constructing a pangenome gene graph☆206Aug 11, 2025Updated 9 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A genome completeness evaluation tool based on miniprot☆242Sep 18, 2025Updated 8 months ago
- Version II of Mandalorion☆32Feb 1, 2019Updated 7 years ago
- Detection of m6A from direct RNA-Seq data☆131May 19, 2025Updated last year
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆66Oct 11, 2024Updated last year
- ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data☆20Apr 24, 2024Updated 2 years ago
- ☆20Oct 5, 2022Updated 3 years ago
- Align proteins to genomes with splicing and frameshift☆402Jan 5, 2026Updated 4 months ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- 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☆2,183Apr 25, 2026Updated last month
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆205Nov 23, 2025Updated 6 months ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆183Mar 25, 2026Updated last month
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆240Dec 29, 2023Updated 2 years ago
- ☆297Mar 4, 2026Updated 2 months ago
- k-mer based assembly evaluation☆343Updated this week
- Identification of differential RNA modifications from nanopore direct RNA sequencing☆165Nov 7, 2024Updated last year