Mercurial > repos > nikos > bigwig_to_wig
comparison bigwig_to_wig.xml @ 0:99dc4bdb1d35 draft
Uploaded
| author | nikos |
|---|---|
| date | Tue, 05 Aug 2014 07:44:03 -0400 |
| parents | |
| children | 561c9a746a81 |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:99dc4bdb1d35 |
|---|---|
| 1 <tool id="bigwig_to_wig" name="BigWig to Wig" version="1.0.2"> | |
| 2 <description>converter</description> | |
| 3 <command>bigwig_to_wig.sh -f $input -b $bin_size -l $mylab > $output </command> | |
| 4 <requirements> | |
| 5 <requirement type="package">bigWigSummary</requirement> | |
| 6 <requirement type="package">bigWigInfo</requirement> | |
| 7 </requirements> | |
| 8 <inputs> | |
| 9 <param format="bigwig" name="input" type="data" label="BigWig file to convert" /> | |
| 10 <param name="bin_size" size="4" type="integer" value="500" label="Bin size" help="Must be an even integer > 100." /> | |
| 11 <param name="mylab" type="text" value="wiggle_file" label="Output file prefix" help="" /> | |
| 12 </inputs> | |
| 13 <outputs> | |
| 14 <data format="wig" name="output" label="${mylab}_density_bin${bin_size}.wig" /> | |
| 15 </outputs> | |
| 16 <tests> | |
| 17 <test> | |
| 18 <param name="input" value="1.bigwig" /> | |
| 19 <param name="bin_size" value="500" /> | |
| 20 <output name="output" file="1.wig" /> | |
| 21 <test> | |
| 22 </tests> | |
| 23 <help> | |
| 24 | |
| 25 This tool converts a **BigWig** file to fixed step **Wiggle** format. | |
| 26 Resolution is controlled through the bin size (the higher the size, the lower the resolution). | |
| 27 | |
| 28 The script this tool is based on is written by Jens Vilstrup Johansen and uses bigWigInfo_ and bigWigSummary_. | |
| 29 | |
| 30 .. _bigWigInfo: https://github.com/adamlabadorf/ucsc_tools/blob/master/executables/bigWigInfo | |
| 31 .. _bigWigSummary: https://github.com/adamlabadorf/ucsc_tools/blob/master/executables/bigWigSummary | |
| 32 | |
| 33 </help> | |
| 34 </tool> |