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Repository seq_rename
Name: seq_rename
Owner: peterjc
Synopsis: Rename sequences with ID mapping from a tabular file
Allows you to rename sequences in FASTA, QUAL, FASTQ or SFF files.

The renaming rules are given by two columns of a tabular file (old names and new
names). Any sequence not mentioned in the tabular file keeps its current name.

This tool requires Biopython for working with SFF files.

See also my related tools to filter sequences by ID, or select sequences by ID.
Content homepage: https://github.com/peterjc/pico_galaxy/tree/master/tools/seq_rename
Development repository: https://github.com/peterjc/pico_galaxy/tree/master/tools/seq_rename
Link to this repository: https://toolshed.g2.bx.psu.edu/view/peterjc/seq_rename/e1398f2ba9fe
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/peterjc/seq_rename
Type: unrestricted
Revision: 3:e1398f2ba9fe
This revision can be installed: True
Times cloned / installed: 3324
Dependencies of this repository

Repository dependencies - installation of these additional repositories is required
Repository package_numpy_1_9 revision 83d12e13dbbd owned by iuc (prior install required)
Repository package_atlas_3_10 revision 98c017ec230d owned by iuc (prior install required)
Repository package_python_2_7 revision f761bd14343e owned by iuc (prior install required)
Repository package_zlib_1_2_8 revision 411985b46ae8 owned by iuc (prior install required)
Repository package_readline_6_3 revision ca1a9400d4e1 owned by iuc (prior install required)
Repository package_bzlib_1_0 revision af4887e1f595 owned by iuc (prior install required)
Repository package_xz_5_0_5 revision 944f93d45594 owned by iuc (prior install required)
Repository package_sqlite_3_8_3 revision c8a5c11cc921 owned by iuc (prior install required)
Repository package_gdbm_1_11 revision ed2537bccffc owned by iuc (prior install required)
Repository package_ncurses_6_0 revision 0efde9889efd owned by iuc (prior install required)
Repository package_ncurses_6_0 revision 0efde9889efd owned by iuc (prior install required)
Repository package_libtool_2_4 revision 7f67694b167c owned by iuc (prior install required)
Repository package_galaxy_sequence_utils_1_0_1 revision c1ab450748ba owned by iuc

Tool dependencies - repository tools require handling of these dependencies
Name Version Type
biopython 1.67 package
galaxy_sequence_utils 1.0.1 package

Contents of this repository

Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
Name Description Version Minimum Galaxy Version
with ID mapping from a tabular file 0.0.8 any

Categories
Fasta Manipulation - Tools for manipulating fasta data
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis
Text Manipulation - Tools for manipulating data