There is a pipeline for calling eccDNA based on this software and singularity, please see panxiaoguang/Circle-Map-Cpp_Pipeline Circle-Map-cpp Circle-Map is a great tool to detect thousands of extrachromosomal circular DNA (eccDNA). Thanks to this tool, we can easily get eccDNA from Circle-Seq...
tests tutorial .gitignore LICENSE README.md setup.py README MIT license Welcome to Circle-Map official repository! Circle-Map is an easy to install, python package that implements all the steps required to detect extrachromosomal DNA circles. The package contains easy to run algorithms to accurate...
Realign 最后,使用前面生成的sample.candidates.sort.bam、sample.qname.bam、sample.sort.bam三个bam文件以及参考基因组的fasta文件作为输入,使用Realign来鉴定eccDNA: Circle-Map Realign -i sample.candidates.sort.bam -qbam sample.qname.bam -sbam sample.sort.bam -fasta hg38.fa -o sample.circle.bed ...
(一)bw: 1.拖拽到IGV 2.选择bw文件右键,选择autoscale (二)bed 拖拽bed文件到IGV中,右键bed,选择expanded,拓展后,可看见多个环的信息 peak:指的是eccDNA环的位置 如果是有交集的peak,输出的eccDNA的位置是输入的第一个样本的位置。就是说交集得到的结果取决于公司拖拽样本的顺序orz...