七种常见的核酸序列蛋白编码能力预测工具 | ncRNAs | lncRNA

注：这些工具的应用都是受限的，有些本来就是只能用于预测动物，在使用之前务必用ground truth数据来测试一些。我想预测某一个植物的转录本，所以可以拿已经注释得比较好的拟南芥来测试一下。（测试的结果还是比较惊人的）

CPC

（熟悉的名字，原来是北京大学的高歌、魏丽萍开发的）

搜文章时才发现2017年已经出了CPC2了

CPC可在线使用
a Support Vector Machine-based classifier, named Coding Potential Calculator (CPC), to assess the protein-coding potential of a transcript based on six biologically meaningful sequence features.
Coding Potential Calculator distinguish protein-coding from non-coding RNAs based on the sequence features of the input transcripts. Our preliminary performance assessment suggests the CPC can reliably discriminate the coding and non-coding transcripts in ~98% accuracy. We provide an online version of CPC here.
自称有98%的准确率

bin/run_predict.sh (input_seq) (result_in_table) (working_dir) (result_evidence)

CPC RESULTS （The first column is input sequence ID; the second column is input sequence length; the third column is coding status and the four column is the coding potential score (the "distance" to the SVM classification hyper-plane in the features space).）

AF282387	528	coding	3.32462
Tsix_mus	4300	noncoding	-1.30047

HOMO EVIDENCE
ORF EVIDENCE

AF282387	ORF_FRAMEFINDER	4	529	99.43	109.41	Full
Tsix_mus	ORF_FRAMEFINDER	4077	4206	3.00	27.50	Full

FRAME FINDER