Topic: ecdna Goto Github
Some thing interesting about ecdna
Some thing interesting about ecdna
ecdna,Classify output of AmpliconArchitect to detect types of focal amplifications present
Organization: ampliconsuite
ecdna,Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data
Organization: ampliconsuite
ecdna,Website to host AmpliconSuite outputs, including AA outputs and resulting focal amplification classifications, such as ecDNA.
Organization: ampliconsuite
Home Page: https://AmpliconRepository.org
ecdna,A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior to running AmpliconArchitect. Previously called PrepareAA.
Organization: ampliconsuite
ecdna,Simulate ecDNA structures with user-specified properties.
Organization: ampliconsuite
ecdna,Evolutionary models of extrachromosomal DNA (ecDNA).
User: fraterenz
ecdna,Scripts and analysis for the Giurgiu et al. 2024. Genome Research. "Reconstructing extrachromosomal DNA structural heterogeneity from long-read sequencing data using Decoil".
Organization: henssen-lab
Home Page: https://github.com/madagiurgiu25/decoil-pre
ecdna,A method for circular DNA detection based on probabilistic mapping of ultrashort reads
User: iprada
ecdna,Visualize circular ecDNA reconstructions using Decoil-viz
User: madagiurgiu25
Home Page: https://github.com/madagiurgiu25/decoil-pre
ecdna,Simulation of ecDNA sequence templates
User: madagiurgiu25
ecdna,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.
Organization: nf-core
Home Page: https://nf-co.re/circdna
ecdna,ecc_caller is a pipeline designed to take Illumina NovaSeq paired end sequencing reads generated from isolated circular DNA and call eccDNA forming regions.
User: pierrj
ecdna,GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data and absolute copy number profiles. https://shixiangwang.r-universe.dev/gcap
User: shixiangwang
Home Page: https://shixiangwang.github.io/gcap/
ecdna,Tool used to quantify extrachromosomal DNA (ecDNA) in metaphase images stained with DAPI and FISH probes.
User: ucrajkumar
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