A pipeline to detect chimeric transcripts derived from genes and transposable elements.
☆36Apr 17, 2026Updated last week
Alternatives and similar repositories for ChimeraTE
Users that are interested in ChimeraTE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Invertory of TE-gene isoforms☆14Sep 18, 2023Updated 2 years ago
- MCHelper: An automatic tool to curate transposable element libraries☆45Jul 3, 2025Updated 9 months ago
- meta-pipeline for repetitive element de-fragmentation and annotation☆28Oct 1, 2020Updated 5 years ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆11May 12, 2025Updated 11 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
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A package to count reads mapping on transposable elements subfamilies, families and classes.☆12Feb 3, 2023Updated 3 years ago
- PiRATE (Pipeline to Retrieve and Annotate Transposable Elements)☆19Nov 10, 2024Updated last year
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆279Nov 6, 2025Updated 5 months ago
- Codes for the Iso-Seq variant-calling paper☆11Apr 28, 2023Updated 3 years ago
- Two pass alignment for long reads☆22Mar 9, 2021Updated 5 years ago
- Earl Grey: A fully automated TE curation and annotation pipeline☆205Apr 20, 2026Updated last week
- 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
- Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq☆22Apr 16, 2026Updated 2 weeks ago
- Transposable element expression at unique loci in single cells with CELLO-seq☆11Jun 17, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Transfer coordinates across genomes☆23Updated this week
- TEspeX - pipeline for Transposable Elements expression quantification☆22Aug 24, 2023Updated 2 years ago
- Identification of transposable element families from pangenome polymorphisms☆56Jun 3, 2025Updated 10 months ago
- The Isoforms from Single-Cell; Long-read Expression Suite☆38Jan 14, 2025Updated last year
- Software for Quantifying Interspersed Repeat Expression☆66Jun 20, 2022Updated 3 years ago
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆19Apr 16, 2026Updated last week
- HELIANO is a software for detection and classification of Helitron-like elements.☆33Jun 10, 2025Updated 10 months ago
- Hybrid error correction approach for long reads using overlap graph☆11Sep 26, 2023Updated 2 years ago
- Software for detecting transposable element insertions from next-generation sequencing data☆14Mar 12, 2021Updated 5 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- ☆20Oct 5, 2022Updated 3 years ago
- Snakemake pipeline to analyze transposable element 'omics data.☆32Apr 11, 2026Updated 2 weeks ago
- FLAME: Full Length Adjecency Matrix Enumeration - is a module that allows for the analysis of ONT Nanopore RNA long-read sequencing data.…☆13May 8, 2025Updated 11 months ago
- GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …☆250Updated this week
- Estimate locus specific human LINE-1 expression.☆39Jan 19, 2026Updated 3 months ago
- Software package for estimating fine-scale recombination rate.☆18Jun 8, 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
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆25Apr 13, 2020Updated 6 years ago
- HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.☆11Sep 24, 2024Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- long read RNA-seq quantification☆109Mar 16, 2026Updated last month
- A Cloud Pipeline to Analyze Long Read Sequencing Data from Oxford Nanopore and PacBio Sequencers☆12Jan 30, 2023Updated 3 years ago
- Ancestry_HMM-S is program designed to infer adaptive introgression from population genomic data☆20Sep 25, 2023Updated 2 years ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- ☆118Apr 24, 2024Updated 2 years ago
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆11Mar 27, 2019Updated 7 years ago
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆15Aug 27, 2023Updated 2 years ago