Repository samtools_flag_filter_1_2
Name: samtools_flag_filter_1_2
Owner: brenninc
Synopsis: Usel Samtools view to filter by flag and sort resulting bam file
Runs samtools view with the -f and _F options to allow filtering on the presence or absence of a bit in the Flag column

The sorts the resulting bam file in the order required by Galaxy
Development repository: https://github.com/Christian-B/galaxy_shedtools/tree/master/samtools_flag_filter
Link to this repository: https://toolshed.g2.bx.psu.edu/view/brenninc/samtools_flag_filter_1_2/97bb72be07f9
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/brenninc/samtools_flag_filter_1_2
Type: unrestricted
Revision: 0:97bb72be07f9
This revision can be installed: True
Times cloned / installed: 575
Dependencies of this repository

Repository dependencies - installation of these additional repositories is required
Repository package_ncurses_5_9 revision 335ebf512407 owned by iuc (prior install required)
Repository package_zlib_1_2_8 revision 411985b46ae8 owned by iuc (prior install required)

Tool dependencies - repository tools require handling of these dependencies
Name Version Type
samtools 1.2 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
Use Samtools' view tool to filter alignments based on the flag field. 0.1 any

Categories
SAM - Tools for manipulating alignments in the SAM format