@深山夕照深秋雨OvO 好的，谢谢已经解决了👍
跟着Science学保守元件(Conserved Elemtns)的鉴定0.代码来源文章参考:《Large-scale ruminant genome sequencing provides insights into their evoluti...
IP属地：海南
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@深山夕照深秋雨OvO 好的谢谢
跟着Science学保守元件(Conserved Elemtns)的鉴定
0.代码来源文章参考:《Large-scale ruminant genome sequencing provides insights into their evoluti...
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啊，基于多序列对比的maf，跑完phasCons后生成的保守元件仅仅只是参考基因组的吗？不是所有物种综合考虑的结果吗？你看这篇文献：
We first filtered the 52-way primate genome alignments and at least 90% of the
species were presented in the alignments. The 4d-sites were employed to extract MAFs
from the 52-way primate genome alignments. We employed the phyloFit program in
PHAST (v1.5) (177) to estimate the non-conserved model. Then, we ran the phastCons
program in PHAST (v1.5) (177) with the primates’ non-conserved model to create the
primates’ conserved models with the option ‘--estimate-rho’. The highly conserved
elements were predicted in primates using the phastCons program in PHAST (v1.5)
with options ‘--most-conserved –score options’. Eventually, we identified 1,309,699
HCEs with an average length of 147 bp and a total length of 192 Mbp.
We generated the conserved non-exonic elements by excluding exon regions from
highly conserved elements and finally obtained 1,118,099 conserved non-exonic
elements with a total length of 156.9 Mbp and an average length of 140 bp.
These conserved non-exonic element data, generated across 52 species, were then
concatenated and used to construct the conserved non-exonic element tree
如果那么的话，每个物种单独跑一边，怎么可能concatenated一个super sequence？跟着Science学保守元件(Conserved Elemtns)的鉴定
0.代码来源文章参考:《Large-scale ruminant genome sequencing provides insights into their evoluti...
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您好，可以基于Chr1.maf.lst和bed，生成cne的fasta序列吗
跟着Science学保守元件(Conserved Elemtns)的鉴定
0.代码来源文章参考:《Large-scale ruminant genome sequencing provides insights into their evoluti...
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跟着Science学保守元件(Conserved Elemtns)的鉴定0.代码来源文章参考:《Large-scale ruminant genome sequencing provides insights into their evoluti...
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宏基因组学/群体遗传学 方向
