vaquerizaslab / tadtool
TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
☆43Updated last year
Related projects ⓘ
Alternatives and complementary repositories for tadtool
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆36Updated 2 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆64Updated 5 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆34Updated 9 years ago
- Tutorial Website☆53Updated 3 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 4 years ago
- Genomic Association Tester☆29Updated last year
- tools to find circRNAs in RNA-seq data☆40Updated 6 years ago
- QDNAseq package for Bioconductor☆48Updated 3 months ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆33Updated last year
- 4C-seq processing pipeline☆22Updated 6 months ago
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆26Updated 5 years ago
- Allele-specific alignment sorting☆53Updated last year
- Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.☆24Updated 5 years ago
- A Perl/R pipeline for plotting metagenes☆35Updated 3 years ago
- STARRPeaker: STARR-seq peak caller☆15Updated 2 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆43Updated 5 years ago
- ☆34Updated 5 years ago
- toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR☆62Updated 10 months ago
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆27Updated 3 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆56Updated 3 weeks ago
- GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.☆42Updated 7 years ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆43Updated 6 months ago
- ENCODE long read RNA-seq pipeline☆44Updated last year
- Tools for analyzing DNA methylation data☆28Updated last week
- ☆37Updated last year
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆77Updated 8 months ago
- R package for inferring copy number from read depth☆31Updated 2 years ago