mortazavilab / lapaView external linksLinks
Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.
☆34Nov 8, 2023Updated 2 years ago
Alternatives and similar repositories for lapa
Users that are interested in lapa are comparing it to the libraries listed below
Sorting:
- Gencode UTR fix☆16Jan 11, 2023Updated 3 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 9 months ago
- ☆39Apr 25, 2023Updated 2 years ago
- A Python library to visualize and analyze long-read transcriptomes☆66Jan 19, 2026Updated 3 weeks ago
- ☆31Nov 28, 2024Updated last year
- ☆20Feb 1, 2026Updated 2 weeks ago
- ☆12Dec 14, 2021Updated 4 years ago
- Penguin: A Tool for Predicting Pseudouridine Sites in Direct RNA Nanopore Sequencing Data☆14Nov 15, 2021Updated 4 years ago
- Quantification of isoform usage and alternative polyadenylation (APA) from single-cell RNA-seq using a Nextflow-based pipeline.☆31Nov 6, 2025Updated 3 months ago
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆15Apr 4, 2024Updated last year
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆65Oct 11, 2024Updated last year
- Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing☆44Jul 19, 2024Updated last year
- Isoform co-usage networks from single-cell RNA-seq data☆16Feb 21, 2024Updated last year
- Model-based analysis of APA using 3' end-linked reads☆12Aug 14, 2021Updated 4 years ago
- Demultiplexing and debarcoding tool designed for LR-Split-seq data.☆24Oct 19, 2023Updated 2 years ago
- Technology agnostic long read analysis pipeline for transcriptomes☆156Jan 25, 2024Updated 2 years ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- Full-Length Alternative Isoform analysis of RNA☆246Updated this week
- Isoform-level functional RNA-Seq analysis 🧬☆36Nov 12, 2025Updated 3 months ago
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆225Updated this week
- An integrated computational framework for comprehensive transcriptome analyses with Nanopore direct-RNA sequencing data☆14May 17, 2025Updated 8 months ago
- ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data☆20Apr 24, 2024Updated last year
- Iso-Seq reads simulator for PacBio and ONT full-length isoform sequencing technologies☆16Mar 1, 2022Updated 3 years ago
- Community effort to evaluate computational methods for the detection and quantification of poly(A) sites and estimating their differentia…☆14Jan 11, 2024Updated 2 years ago
- Detection of m6A from direct RNA-Seq data☆131May 19, 2025Updated 8 months ago
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆58Oct 14, 2024Updated last year
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆203Updated this week
- Clair3-RNA - a long-read small variant caller for RNA sequencing data☆39Dec 23, 2025Updated last month
- Nanopore 3' end-capture sequencing (Begik et al., bioRxiv 2021)☆14Jul 7, 2025Updated 7 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
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆250Feb 6, 2026Updated last week
- polyApipe☆19Feb 10, 2025Updated last year
- Invertory of TE-gene isoforms☆14Sep 18, 2023Updated 2 years ago
- Rust Backend for PyRanges Operations. More featureful and much faster replacement for the NCLS library☆30Dec 18, 2025Updated last month
- ☆14Oct 5, 2023Updated 2 years ago
- An m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedo…☆18Sep 1, 2025Updated 5 months ago
- Regenotyping structural variants through an accurate and efficient force-calling method☆25Nov 28, 2025Updated 2 months ago
- python API to the CoGAPS NMF package☆19May 19, 2025Updated 8 months ago
- ☆19Nov 17, 2025Updated 2 months ago