Features of CDS Prediction Programs
rsCDS | NCBI CDS | ProCrest | DECODER | Longest-ORF | Truncated-ORF | |
|---|---|---|---|---|---|---|
| Base method (ab initio/sequence similarity) | Homology | Both | Ab initio | Both | Ab initio | Ab initio |
| Detection of frameshift | Yes (any) | Yes (one) | Yes (one) | Yes (any) | No | No |
| Detection of stop codons in frame | Yes | No | No | No | No | No |
| Prediction of partial CDS | Yes | Yes | Yes | Yes | No | Yes |
| Detection of immature | Yes | No | No | No | No | No |
|
Usage of sequence quality (phred score) |
No |
No |
Yes |
Yes |
No |
No |
[i] Features of six programs used for FANTOM2, estimated. See Methods for details