下面是100个lncRNA组装流程的软件的笔记教程
transeq是emboss里的一个工具
功能:把核酸序列翻译为氨基酸序列
官网:http://emboss.sourceforge.net/apps/cvs/emboss/apps/transeq.html
使用conda安装
conda install emboss
安装完成以后,可以使用transeq -h来查看软件的帮助文档。
-frame=F # To translate a sequence in all three forward frames
-frame=R # To translate a sequence in all three reverse frames
-trim # This removes all 'X' and '*' characters from the right end of the translation.
The trimming process starts at the end and
continues until the next character is not a 'X' or a '*'
-clean # This changes all STOP codon positions
from the '*' character to 'X' (an unknown
residue). This is useful because some
programs will not accept protein sequences
with '*' characters in them.
fasta格式的核酸序列
### 四、软件运行命令
```sh
transeq ../step3/intersection/filter3_by_noncoding_exon.fa filter4_protein.fa -frame=6
命令参数解读:
../step3/intersection/filter3_by_noncoding_exon.fa # 输入核酸序列
filter4_protein.fa -frame=6 # 输出氨基酸序列
-frame=6 # To translate a sequence in all six forward and reverse frames
fasta格式的氨基酸序列