... cwd: /work/my_gene_family/09.circos
command: /share/work/biosoft/circos/latest/bin/circos -conf config.txt
-outputdir ./ -outputfile HSP90
You have asked to draw [1190] ideograms, but the maximum is currently set at
[200]. To increase this number change max_ideograms...
...片。Figure=False: no figure output; Figure=True: the output of figures from different methods. The default is True.
Figure-resolution：图片分辨率。Figure-resolution=Low: the figure with low resolution; Figure-resolution=High: the figure with high resolution. The default is High.
Figure-fi...
...：
Douglas, G.M., Maffei, V.J., Zaneveld, J.R. et al. for prediction of metagenome functions. Nat Biotechnol 38, 685–688 (2020). https://doi.org/10.1038/s41587-020-0548-6
Chen Yang, Jiahao Mai, Xuan Cao, Aaron Burberry, Fabio Cominelli, Liangliang Zhang, ggpicrust2: an R package for PICRUSt...
...析时报错。
Error: Invalid chromosome code 'chr27' on line 30616892of .vcf file.(Thisis disallowed for humans. Check if the problem is with your data, or ifyou forgot to define a different chromosome set with e.g. --chr-set.)
使用的命令如下：
plink --vcf $workdir/2022_clean.vcf....
...有根树（Rooted species tree）。基于STAG（Species Tree Inference from All Genes）算法从无根基因树上构建无根物种树，再使用STRIDE（Species Tree Root Inference from Gene Duplication Events）算法构建有根物种树；
1.4 （e）通过有根物种树的情况，...
...parameters: [OK]
Checking Epal2nal.pl: [NA]
Please make sure Epal2nal.pl is executable (+X) and put into the global directoryy.
l
total 118M
运行ParaAT批量比对脚本后，显示以上内容。
HECIL(Hybrid Error Correction of Long Reads using Iterative Learning): 这是一款基于二代数据比对，采用迭代学习的方法对pacbio 等长读长序列进行纠错的软件。该软件的第一作者居然是来自IBM。
1. 软件的安装
安装比较简单，从github 上下载...
...rk/biosoft/python/Python3/bin/wgd", line 33, in <module>
sys.exit(load_entry_point('wgd==1.2', 'console_scripts', 'wgd')())
File "/share/work/biosoft/python/Python-v3.9.16/lib/python3.9/site-packages/click/core.py", line 1130, in __call__
return self.main(*args, **kwargs)
...