Mercurial > repos > bgruening > deeptools
comparison deepTools_macros.xml @ 43:c5787c91cab8 draft
Uploaded
| author | bgruening |
|---|---|
| date | Tue, 04 Feb 2014 09:02:21 -0500 |
| parents | 20f8dafb554f |
| children | b9feca1f07f0 |
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| 42:ef1232cedacb | 43:c5787c91cab8 |
|---|---|
| 48 <requirements> | 48 <requirements> |
| 49 <requirement type="binary">@BINARY@</requirement> | 49 <requirement type="binary">@BINARY@</requirement> |
| 50 <requirement type="package" >samtools</requirement> | 50 <requirement type="package" >samtools</requirement> |
| 51 <requirement type="package" >deepTools</requirement> | 51 <requirement type="package" >deepTools</requirement> |
| 52 <requirement type="package" >ucsc_tools</requirement> | 52 <requirement type="package" >ucsc_tools</requirement> |
| 53 <requirement type="package" version="1.5.4_1093b2d281576f23ee04740bd5eae3f7b8422f7e">deepTools</requirement> | 53 <requirement type="package" version="1.5.4_3268f7e1458f3a520ab6fea3039971ee9d7a6d5b">deepTools</requirement> |
| 54 <requirement type="package" version="0.1">ucsc_tools</requirement> | 54 <requirement type="package" version="0.1">ucsc_tools</requirement> |
| 55 <requirement type="package" version="1.7.1">numpy</requirement> | 55 <requirement type="package" version="1.7.1">numpy</requirement> |
| 56 <requirement type="package" version="0.7.7">pysam</requirement> | 56 <requirement type="package" version="0.7.7">pysam</requirement> |
| 57 <requirement type="package" version="0.12.0">scipy</requirement> | 57 <requirement type="package" version="0.12.0">scipy</requirement> |
| 58 <requirement type="package" version="1.2.1">matplotlib</requirement> | 58 <requirement type="package" version="1.2.1">matplotlib</requirement> |
| 65 | 65 |
| 66 <xml name="kmeans_clustering"> | 66 <xml name="kmeans_clustering"> |
| 67 | 67 |
| 68 <conditional name="used_multiple_regions"> | 68 <conditional name="used_multiple_regions"> |
| 69 <param name="used_multiple_regions_options" type="select" | 69 <param name="used_multiple_regions_options" type="select" |
| 70 label="Did you used multiple regions in ComputeMatrix?" | 70 label="Did you use multiple regions in computeMatrix?" |
| 71 help="Would you like to cluster the regions according to the similarity of the signal distribution? This is only possible if you used computeMatrix on only one group of regions."> | 71 help="Would you like to cluster the regions according to the similarity of the signal distribution? This is only possible if you used computeMatrix on only one group of regions."> |
| 72 <option value="yes">Yes, I used multiple regions.</option> | 72 <option value="yes">Yes, I used multiple regions.</option> |
| 73 <option value="no">No, I used only one region.</option> | 73 <option value="no">No, I used only one region.</option> |
| 74 </param> | 74 </param> |
| 75 <when value="no"> | 75 <when value="no"> |
| 198 <option value="2451960000" selected="true">hg19 (2451960000)</option> | 198 <option value="2451960000" selected="true">hg19 (2451960000)</option> |
| 199 <option value="2150570000">mm9 (2150570000)</option> | 199 <option value="2150570000">mm9 (2150570000)</option> |
| 200 <option value="specific">user specified</option> | 200 <option value="specific">user specified</option> |
| 201 </param> | 201 </param> |
| 202 <when value="specific"> | 202 <when value="specific"> |
| 203 <param name="effectiveGenomeSize" type="integer" value="" label="Effective genome size" /> | 203 <param name="effectiveGenomeSize" type="integer" value="" label="Effective genome size" help="e.g. ce10: 93260000, dm3: 121400000, hg19: 2451960000, mm9: 2150570000"/> |
| 204 </when> | 204 </when> |
| 205 <when value="2150570000" /> | 205 <when value="2150570000" /> |
| 206 <when value="2451960000" /> | 206 <when value="2451960000" /> |
| 207 <when value="121400000" /> | 207 <when value="121400000" /> |
| 208 <when value="93260000" /> | 208 <when value="93260000" /> |