Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
☆72Jan 31, 2024Updated 2 years ago
Alternatives and similar repositories for TranscriptClean
Users that are interested in TranscriptClean are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Technology agnostic long read analysis pipeline for transcriptomes☆159Jan 25, 2024Updated 2 years ago
- Two pass alignment for long reads☆22Mar 9, 2021Updated 5 years ago
- Full-Length Alternative Isoform analysis of RNA☆254Jun 23, 2026Updated 3 weeks ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆185Apr 12, 2023Updated 3 years ago
- A Cloud Pipeline to Analyze Long Read Sequencing Data from Oxford Nanopore and PacBio Sequencers☆12Jan 30, 2023Updated 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.
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆12May 12, 2025Updated last year
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆241Jun 24, 2026Updated 3 weeks ago
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆233Updated this week
- Version II of Mandalorion☆32Feb 1, 2019Updated 7 years ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆85Jul 4, 2022Updated 4 years ago
- FLAME: Full Length Adjecency Matrix Enumeration - is a module that allows for the analysis of ONT Nanopore RNA long-read sequencing data.…☆12May 8, 2025Updated last year
- Invertory of TE-gene isoforms☆14Sep 18, 2023Updated 2 years ago
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆275Jul 6, 2026Updated 2 weeks ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- 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.
- A Python library to visualize and analyze long-read transcriptomes☆69Jan 19, 2026Updated 6 months ago
- IsoTools is a python module for Long Read Transcriptome Sequencing (LRTS) analysis.☆28Oct 6, 2023Updated 2 years ago
- ☆39Apr 25, 2023Updated 3 years ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated last year
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆281Sep 26, 2023Updated 2 years ago
- ENCODE long read RNA-seq pipeline☆52Apr 13, 2026Updated 3 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆68Oct 11, 2024Updated last year
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆251Jul 14, 2026Updated last week
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆38Nov 8, 2023Updated 2 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- longcallR is a tool for SNP calling, haplotype phasing, and allele-specific analysis with long-read RNA-seq data.☆93Jun 26, 2026Updated 3 weeks ago
- Error correction of ONT transcript reads☆58Sep 6, 2023Updated 2 years ago
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆25Jun 20, 2026Updated last month
- De novo clustering of long transcript reads into genes☆80Apr 27, 2025Updated last year
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 11 months ago
- ☆21Apr 20, 2026Updated 3 months ago
- single-cell analysis workflows for double phosphoramidite barcode and UMI Correction (scCOLOR-seq)☆13Jul 13, 2023Updated 3 years ago
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆16Feb 20, 2023Updated 3 years ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆20Oct 12, 2024Updated 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.
- single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…☆27Mar 3, 2026Updated 4 months ago
- Transcript assembly and quantification for RNA-Seq☆525Jun 3, 2026Updated last month
- Workflow for Nanopore Sequencing of 10x single cell libraries☆19Mar 20, 2025Updated last year
- Pipeline for de novo clustering of long transcriptomic reads☆26Jan 26, 2022Updated 4 years ago
- Error correction of long reads☆16Jan 30, 2026Updated 5 months ago
- For bluntifying overlapped GFAs☆13Jul 26, 2024Updated last year
- Penguin: A Tool for Predicting Pseudouridine Sites in Direct RNA Nanopore Sequencing Data☆15Nov 15, 2021Updated 4 years ago