LIONS is a bioinformatic analysis pipeline which brings together a few pieces of software and some home-brewed scripts to annotate a paired-end RNAseq library to detect TE-intiated transcripts
☆30Dec 28, 2020Updated 5 years ago
Alternatives and similar repositories for LIONS
Users that are interested in LIONS are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆10Jan 29, 2020Updated 6 years ago
- Pipeline for the analysis of PE ChIP-seq data☆15Jul 20, 2020Updated 5 years ago
- Differential ATAC-seq toolkit☆29Dec 21, 2023Updated 2 years ago
- TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing dat…☆22Jul 31, 2017Updated 8 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆41Feb 14, 2022Updated 4 years ago
- 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.
- ☆21Nov 15, 2020Updated 5 years ago
- Software for Quantifying Interspersed Repeat Expression☆66Jun 20, 2022Updated 3 years ago
- Tool comparison for detecting differentially expressed individual transposable elements☆11Jan 7, 2022Updated 4 years ago
- This repository contains the source code of the revised version of MutPanning. MutPanning is publicly available under the BSD3-Clause ope…☆13Nov 12, 2019Updated 6 years ago
- Mutational Signature Comprehensive Analysis Toolkit☆16Apr 11, 2026Updated last month
- R package for bcbio RNA-seq analysis.☆64Sep 9, 2024Updated last year
- Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics☆124Apr 17, 2026Updated last month
- Estimate locus specific human LINE-1 expression.☆40Jan 19, 2026Updated 4 months ago
- ☆13May 27, 2025Updated 11 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- TEspeX - pipeline for Transposable Elements expression quantification☆22Aug 24, 2023Updated 2 years ago
- SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances☆93Jan 26, 2023Updated 3 years ago
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆282May 11, 2026Updated last week
- WGS Pipeline☆13Jan 19, 2018Updated 8 years ago
- Distribution of TEs and their relationship to genes in host genome☆24Jun 20, 2023Updated 2 years ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆11May 12, 2025Updated last year
- DTU analysis tool inspired by llamas☆12Sep 28, 2025Updated 7 months ago
- Identify differentially expressed k-mers between RNA-Seq datasets☆11Mar 1, 2021Updated 5 years ago
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- 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.
- ☆12Mar 19, 2026Updated 2 months ago
- SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.☆12Sep 19, 2019Updated 6 years ago
- HiCnv is used to call copy number variations and breakpoints from Hi-C data☆23Mar 30, 2024Updated 2 years ago
- Code for the paper "BIOLITMAP: a web-based geolocated and temporal visualization of the evolution of bioinformatics publications" in Oxfo…☆21May 3, 2019Updated 7 years ago
- Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps☆124Nov 8, 2018Updated 7 years ago
- A pipeline for identifying indel derived neoantigens using RNA-Seq data☆30Aug 29, 2022Updated 3 years ago
- NOTE: This package has been renamed to sparrow and will be submitted to Bioconductor 3.14. Please use that package instead. This is kept …☆23Nov 16, 2020Updated 5 years ago
- ☆23Jun 5, 2021Updated 4 years ago
- Quick mining and visualization of NGS data by integrating genomic databases☆272May 5, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Enriched Domain Detector for ChIP-seq data☆16Aug 17, 2022Updated 3 years ago
- Code for phasing SVs with SNPs☆54Mar 27, 2020Updated 6 years ago
- create, manage, and upload track hubs for use in the UCSC genome browser☆55Apr 20, 2024Updated 2 years ago
- Ritornello is a high fidelity control free ChIP-seq peak calling algorithm☆13Aug 23, 2018Updated 7 years ago
- Custom scripts used in "Spatiotemporal DNA Methylome Dynamics of the Developing Mammalian Fetus"☆11Oct 15, 2020Updated 5 years ago
- Allele-Specific Quantification of Structural Variations in Cancer Genomes☆18Mar 5, 2019Updated 7 years ago
- RIESLING: Super-enhancer identification. (Rapid Identification of EnhancerS LInked to Nearby Genes)☆10Jun 28, 2018Updated 7 years ago