nf-core / circdna
Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from cancer and other eukaryotic cells.
☆28Updated 3 weeks ago
Alternatives and similar repositories for circdna:
Users that are interested in circdna are comparing it to the libraries listed below
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆37Updated 2 years ago
- Micro DNA identification☆22Updated 3 years ago
- Long-read Isoform Quantification and Analysis☆39Updated last week
- a tool to detect eccDNA using Illumina and ONT sequencing☆14Updated 8 months ago
- ☆40Updated 2 years ago
- Annotation and segmentation of MAS-seq data☆20Updated last year
- A Perl/R pipeline for plotting metagenes☆36Updated 3 years ago
- Reconstruction of focal amplifications with long reads☆15Updated this week
- RNA editing tests☆16Updated 4 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆79Updated 11 months ago
- ☆38Updated 4 years ago
- The ECCsplorer is a bioinformatics pipeline for the automated detection of extrachromosomal circular DNA (eccDNA) from paired-end read da…☆18Updated 9 months ago
- SingleCell Nanopore sequencing data analysis☆53Updated last month
- Quantitation and visualization of differential alternative splicing events☆10Updated last year
- Tutorial Website☆55Updated 3 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- ☆13Updated 7 years ago
- Tools for analyzing DNA methylation data☆36Updated last month
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆61Updated last month
- Main repository for Drews et al. (Nature, 2022)☆39Updated last year
- optimization of ribosome P-site positioning in ribosome profiling data☆46Updated last year
- ENCODE whole-genome bisulfite sequencing (WGBS) pipeline☆29Updated 2 years ago
- A method for circular DNA detection based on probabilistic mapping of ultrashort reads☆61Updated 6 months ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆20Updated 7 months ago
- RiboPlotR package for Ribo-plot☆14Updated last year
- A package for quantifying transposable elements at a locus level for RNAseq datasets.☆24Updated 4 months ago
- SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …☆40Updated 3 months ago
- Fork of the Polysolver project☆30Updated 5 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆54Updated this week