# HG changeset patch
# User lxue
# Date 1431722599 14400
# Node ID 32c73c20f12f6d02efbf28b60db2fc22476cb3ab
# Parent  af338b471ed334c01d67421c610b6715deab7707
Deleted selected files

diff -r af338b471ed3 -r 32c73c20f12f AGEseq.xml
--- a/AGEseq.xml	Fri May 15 16:40:48 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,38 +0,0 @@
-<tool id="AGEseq" name="AGEseq">
-   <description>Analysis of Genome Editing by Sequencing</description>
-   <command interpreter="perl">AGEseq_web.pl  $target  $read  $mismatch  $minAbundance  $wtNum  $indelNum  $output </command>
-   <inputs>
-     <param format="txt" name="target" type="data" label="Target File (Reference Table)" help="Select target/reference file."/>
-     <param format=""   name="read"  type="data"  label="Read file (Sanger or NGS)" help="Select read file in fasta or fastq format." />
-    
-
-      <param name="mismatch" type="float" value="0.1" label="Mismatch Rate Cutoff" help="Mismatch rate to filter low quality alignment, default 0.1 (10 %)" />
-      <param name="minAbundance" type="integer" value="0" label="Abundance Cutoff" help="Cutoff to filter reads with low abundance, default  0" />
-      <param name="wtNum" type="integer" value="20" label="Numbers of WT-like records to be reported" help="Report top xx WT like records, default 20" />
-      <param name="indelNum" type="integer" value="50" label="Numbers of records with indel to be reported" help="Report top xx records with indel, default 50" />
-
-   </inputs>
-
-   <outputs>
-     <data format="txt" name="output" />
-   </outputs>
-
-
-   <tests>
-      <test>
-       <param name="target" value="targets.txt"/>
-       <param name="read" value="S2_L001_R1_001.fastq"/>
-       <output name="out_file1" file="AGEseq_output.txt"/>
-      </test>
-   </tests>
-
-
-   <help>
-**AGEseq** compares amplicon sequences with expected target sequences and finds the insertion/deletion sites in the amplicon sequences.
-
-Please refer to http://aspendb.uga.edu/downloads or https://github.com/liangjiaoxue/AGEseq for more details.
-
-
-   </help>
- 
- </tool>
\ No newline at end of file