wyang17 / SQuIRELinks
Software for Quantifying Interspersed Repeat Expression
☆58Updated 3 years ago
Alternatives and similar repositories for SQuIRE
Users that are interested in SQuIRE are comparing it to the libraries listed below
Sorting:
- Allele-specific alignment sorting☆58Updated 2 years ago
- A package for quantifying transposable elements at a locus level for RNAseq datasets.☆27Updated 4 months ago
- ☆58Updated 3 years ago
- ENCODE long read RNA-seq pipeline☆48Updated 2 years ago
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆109Updated 4 years ago
- FEELnc : FlExible Extraction of LncRNA☆87Updated 9 months ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆39Updated 3 years ago
- ☆61Updated 10 months ago
- Quantification of transposable element expression using RNA-seq☆71Updated last year
- Tutorial Website☆59Updated 4 years ago
- A Perl/R pipeline for plotting metagenes☆37Updated 3 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated 4 months ago
- optimization of ribosome P-site positioning in ribosome profiling data☆52Updated 4 months ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆86Updated 2 years ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆65Updated last year
- HiC uniform processing pipeline☆60Updated last year
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆73Updated 2 years ago
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆91Updated last month
- fork of RSeQC python RNAseq metrics suit of tools☆48Updated 6 years ago
- Publication quality NGS track plotting☆113Updated 2 years ago
- A tool for the calculation of RNA-editing index for RNA seq data☆43Updated last year
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆68Updated last year
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆65Updated 6 years ago
- Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics☆113Updated 2 weeks ago
- toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR☆62Updated last year
- Long-read Isoform Quantification and Analysis☆38Updated 3 months ago
- A method for circular DNA detection based on probabilistic mapping of ultrashort reads☆63Updated 11 months ago
- Estimate the cis-regulatory activity of transposable element (TEs) subfamilies☆10Updated last year
- Estimate locus specific human LINE-1 expression.☆35Updated 2 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 5 years ago