Table 2 Feature comparisons of publicly available EST analysis pipelines
From: ESAP plus: a web-based server for EST-SSR marker development
| Â | Pipeline options | |||||
|---|---|---|---|---|---|---|
Pre-processing | Clustering and assembly | SSR mining | Primer design | Website | Output | |
PESTAS | Phred | TGICL | - | - | JSP | View on website |
Cross_match | ||||||
SeqClean | ||||||
RepeatMasker | ||||||
ESTpass | Cross_match | CAP3 | - | - | HTML | View on website |
RepeatMasker | d2_cluster | Java | Download file | |||
ESMP | Cross_match | CAP3 | MISA | - | HTML | View on website |
Trimest | CSS | Download file (.rar) | ||||
Java script | ||||||
PHP | ||||||
ESAP Plus | Length_N.pl | CD-HIT-EST | MISA | BatchPrimer3 | HTML | View on website |
SeqClean | TGICL | RepeatMasker | CSS | Download file (.zip) | ||
RepeatMasker | Java script | |||||
PHP | ||||||