Mercurial > repos > iuc > bedtools

comparison closestBed.xml @ 61:9f6bd4c9479f draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit db0b91a784ca0c216345bc488d7d488babf1b53f"
author iuc
date Fri, 01 Apr 2022 19:00:48 +0000
parents 539958feb49c
children f6c88d2e9ae5
comparison
equal deleted inserted replaced
60:36d57dc82aa6 61:9f6bd4c9479f
147 <param name="source" value="history" /> 147 <param name="source" value="history" />
148 <param name="inputB" value="a.bed" ftype="bed" /> 148 <param name="inputB" value="a.bed" ftype="bed" />
149 <param name="k" value="3" /> 149 <param name="k" value="3" />
150 <output name="output" file="closestBed_result6.bed" ftype="bed" /> 150 <output name="output" file="closestBed_result6.bed" ftype="bed" />
151 </test> 151 </test>
152 <test>
153 <param name="inputA" value="closestBedA.bed" ftype="bed" />
154 <param name="source" value="data_table" />
155 <param name="inputB" value="testid" />
156 <param name="k" value="3" />
157 <output name="output" file="closestBed_result6.bed" ftype="bed" />
158 </test>
152 </tests> 159 </tests>
153 <help><![CDATA[ 160 <help><![CDATA[
154 **What it does** 161 **What it does**
155 162
156 Similar to intersectBed, closestBed searches for overlapping features in A and B. In the event that no feature in B overlaps the current feature in A, closestBed will report the closest (that is, least genomic distance from the start or end of A) feature in B. For example, one might want to find which is the closest gene to a significant GWAS polymorphism. Note that closestBed will report an overlapping feature as the closest—that is, it does not restrict to closest non-overlapping feature. 163 Similar to intersectBed, closestBed searches for overlapping features in A and B. In the event that no feature in B overlaps the current feature in A, closestBed will report the closest (that is, least genomic distance from the start or end of A) feature in B. For example, one might want to find which is the closest gene to a significant GWAS polymorphism. Note that closestBed will report an overlapping feature as the closest—that is, it does not restrict to closest non-overlapping feature.