OliveiraDS-hub / ChimeraTEView external linksLinks
A pipeline to detect chimeric transcripts derived from genes and transposable elements.
☆35Jul 27, 2025Updated 6 months ago
Alternatives and similar repositories for ChimeraTE
Users that are interested in ChimeraTE are comparing it to the libraries listed below
Sorting:
- Invertory of TE-gene isoforms☆14Sep 18, 2023Updated 2 years ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- A package to count reads mapping on transposable elements subfamilies, families and classes.☆12Feb 3, 2023Updated 3 years ago
- Codes for the Iso-Seq variant-calling paper☆11Apr 28, 2023Updated 2 years ago
- Transfer coordinates across genomes☆23May 23, 2025Updated 8 months ago
- Scripts for Wang et al (2020) Evidence for widespread selection in shaping the genomic landscape during speciation of Populus.☆11Feb 15, 2020Updated 6 years ago
- Two pass alignment for long reads☆22Mar 9, 2021Updated 4 years ago
- MCHelper: An automatic tool to curate transposable element libraries☆45Jul 3, 2025Updated 7 months ago
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆276Nov 6, 2025Updated 3 months ago
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆18Jan 8, 2026Updated last month
- Ancestry_HMM-S is program designed to infer adaptive introgression from population genomic data☆19Sep 25, 2023Updated 2 years ago
- Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq☆21Jan 26, 2026Updated 3 weeks ago
- Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.☆16May 17, 2022Updated 3 years ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆25Apr 13, 2020Updated 5 years ago
- Earl Grey: A fully automated TE curation and annotation pipeline☆192Updated this week
- meta-pipeline for repetitive element de-fragmentation and annotation☆28Oct 1, 2020Updated 5 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
- The Isoforms from Single-Cell; Long-read Expression Suite☆37Jan 14, 2025Updated last year
- Identification of transposable element families from pangenome polymorphisms☆55Jun 3, 2025Updated 8 months ago
- Estimate locus specific human LINE-1 expression.☆39Jan 19, 2026Updated 3 weeks ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- ☆23May 26, 2023Updated 2 years ago
- PiRATE (Pipeline to Retrieve and Annotate Transposable Elements)☆19Nov 10, 2024Updated last year
- Software for Quantifying Interspersed Repeat Expression☆65Jun 20, 2022Updated 3 years ago
- Software for detecting transposable element insertions from next-generation sequencing data☆14Mar 12, 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
- long read RNA-seq quantification☆102Feb 4, 2026Updated last week
- Merging assemblies by using adjacency algebraic model and classification☆22Jun 17, 2023Updated 2 years ago
- Snakemake pipeline to analyze transposable element 'omics data.☆30Jan 19, 2026Updated 3 weeks ago
- TEspeX - pipeline for Transposable Elements expression quantification☆22Aug 24, 2023Updated 2 years ago
- ☆20Oct 5, 2022Updated 3 years ago
- Transposable element expression at unique loci in single cells with CELLO-seq☆11Jun 17, 2024Updated last year
- Pipelines to run STRUCTURE using multiple front-ends (CLUMPAK+StrAuto, Structure_threader)☆11Oct 5, 2020Updated 5 years ago
- ☆10Jul 10, 2023Updated 2 years ago
- The BiomolecularStructures package provides several Bioinformatics-related modules for Julia.☆12Jun 13, 2017Updated 8 years ago
- A Cloud Pipeline to Analyze Long Read Sequencing Data from Oxford Nanopore and PacBio Sequencers☆12Jan 30, 2023Updated 3 years ago
- (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join☆11Apr 29, 2021Updated 4 years ago
- This is a tool for speculation of ancestral allel, calculation of sfs and drawing its bar plot. It is easy-to-use and runing fast. What y…☆11Dec 16, 2022Updated 3 years ago
- Fast gradient-based optimization of resistance surfaces☆14Jul 9, 2020Updated 5 years ago