| Characteristics of available EST analysis pipelines |
Name of the EST-pipeline |
Programs used for
Pre-processing |
Programs used for EST cluster and Assembly |
Programs used for orf prediction and conceptual translation of EST |
Database used |
Free for academic users |
|
SeqClean & megaBLAST |
CAP3 Paracel TranscriptAssembler[tm] |
DIANA-EST, ESTscan & Framefinder |
MySql
|
Only few programs are free ex:TGICL
|
|
Phred & Cross_Match |
D2_cluster & CAP3 |
BLASTX
|
Oracle
|
√
|
|
Trace2dbest (Phred & Cross_Match) |
Partigene (CLOBB & Phrap) |
Prot4est (DECODER & ESTSCAN) |
PostgreSQL
|
√
|
|
Information not available |
BlastClust & CAP3
|
BLASTX
|
MySql
|
√
|
|
Phred & Consed
|
Phrap
|
None
|
Oracle
|
√
|
|
Phred & RepMask & UniVec
|
CAP3
|
BLASTX
|
Inhouse W2H
task system |
Free only for 4 weeks Yearly fees
|
|
Phred & Cross_Match
|
Check
|
None
|
PostgreSQL
|
√
|
|
Phred & Cross_Match
|
Phrap
|
BLASTX
|
MySql
|
√
|
|
Cross_Match
|
HPT2( Biomax informatics ) & CAP3
|
ESTscan & BLASTX |
PostgreSQL
|
√
|