EMBOSS: descseq


Program descseq

Function

Alter the name or description of a sequence

Description

This alters the name or the description of a sequence, either by replacing the previous one with a new name or description, or by appending some text to the existing one.

Usage

Set the name of a sequence to "myclone23"
% descseq -seq clone23 -out clone23.seq -name "myclone23"

Set the description of a sequence to "This is my clone number 244"

% descseq -seq xy24 -out xy24.seq -desc "This is my clone number 244"

Append some text to the description of a sequence

% descseq -seq est.seq -out est4.seq -desc " (submitted)" -append

Command line arguments

   Mandatory qualifiers:
  [-sequence]          sequence   Sequence USA
  [-outseq]            seqout     Output sequence USA

   Optional qualifiers:
   -name               string     Name of the sequence
   -description        string     Description of the sequence

   Advanced qualifiers:
   -append             bool       This allows you to append the name or
                                  description you have given on to the end of
                                  the existing name or description of the
                                  sequence.


Mandatory qualifiers Allowed values Default
[-sequence]
(Parameter 1)
Sequence USA Readable sequence Required
[-outseq]
(Parameter 2)
Output sequence USA Writeable sequence <sequence>.format
Optional qualifiers Allowed values Default
-name Name of the sequence Any string is accepted An empty string is accepted
-description Description of the sequence Any string is accepted An empty string is accepted
Advanced qualifiers Allowed values Default
-append This allows you to append the name or description you have given on to the end of the existing name or description of the sequence. Yes/No No

Input file format

Normal sequence.

Output file format

Normal sequence file.

Data files

None.

Notes

None.

References

None.

Warnings

None.

Diagnostic Error Messages

None.

Exit status

It always exits with status 0.

Known bugs

None noted.

See also

Program nameDescription
cutseqRemoves a specified section from a sequence
extractseqExtract regions from a sequence
maskfeatMask off features of a sequence
maskseqMask off regions of a sequence
megamergerMerge two large overlapping nucleic acid sequences
mergerMerge two overlapping nucleic acid sequences
newseqType in a short new sequence
noreturnRemoves carriage return from ASCII files
nthseqWrites one sequence from a multiple set of sequences
pasteseqInsert one sequence into another
revseqReverse and complement a sequence
splitterSplit a sequence into (overlapping) smaller sequences
trimseqTrim ambiguous bits off the ends of sequences
vectorstripStrips out DNA between a pair of vector sequences

Author(s)

This application was written by Gary Williams (gwilliam@hgmp.mrc.ac.uk)

History

Finished.

Target users

This program is intended to be used by everyone and everything, from naive users to embedded scripts.

Comments