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EMBOSS: alignwrap |
This package is still being developed.
Please ignore this program until further details can be documented.
All further queries should go to Jon Ison. (Jon Ison)
% alignwrap
Mandatory qualifiers: -inpath string Directory containing the seed alignments (input) -extn string File extention of seed alignment files (input) -scopfamilies string scop families file containing the set of sequences in EMBL-like format -outpath string Directory for extended alignments (output) -outextn string File extention of extended alignment files (output) Optional qualifiers: (none) Advanced qualifiers: (none) General qualifiers: -help bool report command line options. More information on associated and general qualifiers can be found with -help -verbose |
Mandatory qualifiers | Allowed values | Default | |
---|---|---|---|
-inpath | Directory containing the seed alignments (input) | Any string is accepted | ./ |
-extn | File extention of seed alignment files (input) | Any string is accepted | .align |
-scopfamilies | scop families file containing the set of sequences in EMBL-like format | Any string is accepted | An empty string is accepted |
-outpath | Directory for extended alignments (output) | Any string is accepted | ./tmp/ |
-outextn | File extention of extended alignment files (output) | Any string is accepted | .extalign |
Optional qualifiers | Allowed values | Default | |
(none) | |||
Advanced qualifiers | Allowed values | Default | |
(none) |
Program name | Description |
---|---|
est2genome | Align EST and genomic DNA sequences |
needle | Needleman-Wunsch global alignment |
stretcher | Finds the best global alignment between two sequences |