ucsffrancislab / REdiscoverTEView external linksLinks
☆12Aug 9, 2024Updated last year
Alternatives and similar repositories for REdiscoverTE
Users that are interested in REdiscoverTE are comparing it to the libraries listed below
Sorting:
- Tool comparison for detecting differentially expressed individual transposable elements☆11Jan 7, 2022Updated 4 years ago
- SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances☆92Jan 26, 2023Updated 3 years ago
- Joint normalization of multiple Hi-C matrices, visualization and detection of differential chromatin interactions, supporting covariates.☆10Apr 22, 2022Updated 3 years ago
- HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.☆11Sep 24, 2024Updated last year
- ☆33Jun 12, 2024Updated last year
- A developed pipeline for expressed endogenous retrovirus identification.☆16Oct 9, 2024Updated last year
- Single-cell Transposable Element Locus Level Analysis of scRNA Sequencing☆19Oct 28, 2025Updated 3 months ago
- Software for Quantifying Interspersed Repeat Expression☆65Jun 20, 2022Updated 3 years ago
- Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq☆21Jan 26, 2026Updated 2 weeks ago
- Estimate locus specific human LINE-1 expression.☆39Jan 19, 2026Updated 3 weeks ago
- ☆23Jan 20, 2021Updated 5 years ago
- ☆17Nov 9, 2020Updated 5 years ago
- SIP: Significant Interaction Peak caller☆15Apr 24, 2025Updated 9 months ago
- R package to explore active transposable elements with RNA-seq data☆21Nov 25, 2022Updated 3 years ago
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆23Jun 4, 2023Updated 2 years ago
- ENCODE long read RNA-seq pipeline☆51Jan 9, 2023Updated 3 years ago
- Pipeline to analyse ChIP-Rx data, i.e ChIP-Seq with reference exogenous genome spike-in normalization☆15Sep 18, 2025Updated 4 months ago
- An Optimized Nested TAD caller for Hi-C data☆25Jun 30, 2021Updated 4 years ago
- chia pet analysis software☆25Jan 17, 2019Updated 7 years ago
- A pipeline to detect chimeric transcripts derived from genes and transposable elements.☆34Jul 27, 2025Updated 6 months ago
- Transcription Factor Enrichment Analysis☆36Dec 8, 2025Updated 2 months ago
- A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications☆41Feb 22, 2022Updated 3 years ago
- A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data☆32Dec 11, 2025Updated 2 months ago
- MEGAnE☆33Sep 13, 2023Updated 2 years ago
- Python agent-based model tool for inference, visualization and analysis of cell-cell communication from single-cell data☆35Nov 28, 2025Updated 2 months ago
- Quantification of transposable element expression using RNA-seq☆84Feb 8, 2024Updated 2 years ago
- scOntoMatch is an R package which unifies ontology annotation of scRNA-seq datasets to make them comparable across studies☆10Oct 27, 2023Updated 2 years ago
- mesa package for Methylation Enrichment Sequencing Analysis☆15Nov 20, 2025Updated 2 months ago
- Analysis pipeline for processing paired-end Illumina reads obtained after ancient mtDNA target enrichment capture.☆11Mar 27, 2020Updated 5 years ago
- Cluster-based analysis of CpG methylation☆13Jan 11, 2024Updated 2 years ago
- ☆36Nov 29, 2021Updated 4 years ago
- A simple python package for doublet detection in scRNA-seq data☆11Mar 30, 2023Updated 2 years ago
- Cell marker identification and evaluation pipeline in single cell transcriptomes.☆10Jan 9, 2025Updated last year
- Tool for finding matches to degenerate sequence motifs in FASTA files.☆13Mar 11, 2024Updated last year
- Implementation of UniSpec, a deep learning model for predicting full fragment ion peptide spectra.☆12Feb 11, 2025Updated last year
- Proteogenomics database-generation tool for protein haplotypes and variants☆11Jun 19, 2025Updated 7 months ago
- Explore the Hi-Cs☆11Nov 30, 2025Updated 2 months ago
- A CNN model to identify MEIs in WGS☆12Mar 4, 2025Updated 11 months ago
- Python library for identification and masking of low-complexity regions in nucleotide sequences☆10Jan 23, 2026Updated 3 weeks ago