Table 1.
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
|
-
Features of six programs used for FANTOM2, estimated. See Methods for details
