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- [x] 探索是否需要引入germline的cn作为建模特征或者内部处理(使用~4000例 TCGA血样 SNP的结果发现有~900基因的CN中位数在3左右。有不少基因CN最大值到10,但考虑到分布代表性,使用中位数)
- ~~[ ] 同时建立预测linear扩增和circular扩增模型,以此对同一基因进行判定,如果存在两者皆有的情况,根据基因的loci背景划分linear和circular…
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将ecDNA基因按下列顺序排序:
- 平均ecDNA的概率
- 拷贝数减去pLOH校正的ploidy然后求平均值
- 先验概率
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https://mp.weixin.qq.com/s/98o-tpTViuhyQP8NjYNk8A
ixxmu updated
2 years ago
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https://mp.weixin.qq.com/s/Yp5UZOu9S66xLiWOC_npTA
ixxmu updated
2 years ago
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Hi Jens,
I ran the PC3_prostate WGS data provided in [NATURE paper](https://www.nature.com/articles/s41467-018-08200-y) with PrepareAA on GCRh38. The results can be downloaded from [here](https://g…
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# 生信爱好者周刊(第 4 期):生信有一天可以得诺贝尔奖吗
这里记录每周值得分享的生信相关内容,周日发布。
本杂志开源(GitHub: [ShixiangWang/weekly](https://github.com/ShixiangWang/weekly)),欢迎提交 issue,投稿或推荐生信相关内容。
GitHub 粉们可以通过 Watch 仓库的 Release(提前)…
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Hello,
I installed Circle-Map via conda and encountered the following problem:
```
Computing the coverage of the identified eccDNA
Merging intervals for coverage computation
Traceback (most r…
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Hi all,
Looking at one cluster plot:
![image](https://user-images.githubusercontent.com/53702866/97319141-81e50c00-1864-11eb-8dfb-6503b0b73bb1.png)
This I think represents chromothripsis. Do yo…
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Hi Jens,
Can you make AmpliconClassifier output the classification of each Cycle in the "*_amplicon_cycles.txt" file?
Best,
Keren
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Hi,
Just wonder is there an easy way to mark those evidence reads so that they can be viewed through IGV ? Thanks!