Repository revision
repository tip
Select a revision to inspect and download versions of Galaxy utilities from this repository.

Repository seq_primer_clip
Owner: peterjc
Synopsis: Trim off 5' or 3' primers
Takes reads in FASTA, FASTQ or SFF format and looks for the given primer sequences
(within the existing clipped sequence) and further clips the reads to remove the
primers and any preceding/trailing sequence. Supports forward and reverse primers,
including IUPAC ambiguity codes.

Note this tool was initially written for Roche 454 data, and should also work fine
on Sanger or Ion Torrent as well. However, it is probably too slow for use on large
Illumina datasets.
Type: unrestricted
Revision: 6:b9dc7c967ee6
This revision can be installed: True
Times cloned / installed: 480
Dependencies of this repository

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

Name Version Type
biopython 1.67 package
galaxy_sequence_utils 1.0.1 package

Contents of this repository

Name Description Version Minimum Galaxy Version
Trim off 5' or 3' primers 0.0.16 any

Categories
Assembly - Tools for working with assemblies
Fasta Manipulation - Tools for manipulating fasta data
Text Manipulation - Tools for manipulating data