☆22Jul 27, 2023Updated 2 years ago
Alternatives and similar repositories for CALDER
Users that are interested in CALDER are comparing it to the libraries listed below
Sorting:
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆26Apr 16, 2025Updated 10 months ago
- An effective alignment tool for long noisy 3C data (e.g. Pore-C and C-walk)☆14Oct 23, 2024Updated last year
- Computational analyses of WGS, mate-pair, RNA-seq, Hi-C and Capture-C data from highly rearranged balancer chromosomes in Drosophila mela…☆10Sep 25, 2019Updated 6 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 3 years ago
- FAN-C: Framework for the ANalysis of C-like data☆121Mar 13, 2024Updated last year
- Discovery of communities in Pore-C concatemers☆15Feb 12, 2025Updated last year
- R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes☆21May 11, 2023Updated 2 years ago
- R package to evaluate the reproducibility of Hi-C data☆27Jun 23, 2023Updated 2 years ago
- HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.☆267Jul 17, 2025Updated 7 months ago
- ChromDiff program as described in Yen and Kellis, Nature Communications 2015.☆14May 12, 2016Updated 9 years ago
- ☆16May 30, 2022Updated 3 years ago
- Deep learning models to predict enhancers in different Drosophila embryo tissues☆20Dec 10, 2023Updated 2 years ago
- Chromatin contact paired-read single-cell Hi-C processing module for Nuc3D and NucTools☆15Sep 15, 2025Updated 5 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Apr 8, 2024Updated last year
- ☆22Aug 11, 2020Updated 5 years ago
- Variant annotation and merging pipeline☆42Jul 22, 2025Updated 7 months ago
- Repository containing the scripts regarding analyses in Zufferey & Tavernari et al.☆10Feb 22, 2021Updated 5 years ago
- GENome Organisation Visual Analytics☆83Feb 3, 2026Updated 3 weeks ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆41Jan 31, 2024Updated 2 years ago
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- A pipeline for Smooth-seq data analysis.☆10Sep 23, 2021Updated 4 years ago
- ☆12Dec 21, 2021Updated 4 years ago
- ☆11May 12, 2021Updated 4 years ago
- ☆14Mar 28, 2025Updated 11 months ago
- ☆10Jan 27, 2025Updated last year
- Galaxy Docker Image for the HiCExplorer☆11Mar 3, 2019Updated 6 years ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 9 months ago
- A cool place to store your Hi-C☆231Updated this week
- Package for analysis and characterization of differential TADs☆26Apr 25, 2022Updated 3 years ago
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated last year
- Genome-wide contact analysis using sklearn☆72Mar 23, 2024Updated last year
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Jun 7, 2019Updated 6 years ago
- Software to estimate oligonucleotide duplexes melting temperature. Includes state-of-the-art monovalent (e.g., Na+) and bivalent (Mg2+) i…☆12Sep 18, 2022Updated 3 years ago
- iFISH Probe Design: a Python3 package to build iFISH probes.☆12Mar 11, 2022Updated 3 years ago
- ☆13Jul 21, 2021Updated 4 years ago
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆28Aug 14, 2024Updated last year
- A Python implementation for BH-FDR and HiCCUPS☆54Dec 29, 2025Updated 2 months ago
- Bash scripts and data used in pantranscriptomic paper☆24Oct 21, 2022Updated 3 years ago
- ☆29Jul 16, 2022Updated 3 years ago