syco.itable

emboss的linux版本的源代码

<table border cellspacing=0 cellpadding=3 bgcolor="#ccccff">
<tr bgcolor="#FFFFCC">
<th align="left" colspan=2>Standard (Mandatory) qualifiers</th>
<th align="left">Allowed values</th>
<th align="left">Default</th>
</tr>

<tr>
<td>[-sequence]<br>(Parameter 1)</td>
<td>Nucleotide sequence filename and optional format, or reference (input USA)</td>
<td>Readable sequence</td>
<td><b>Required</b></td>
</tr>

<tr>
<td>-graph</td>
<td>Graph type</td>
<td>EMBOSS has a list of known devices, including ps, hpgl, hp7470, hp7580, meta, cps, x11, tekt, tek, none, data, xterm, png</td>
<td><i>EMBOSS_GRAPHICS</i> value, or x11</td>
</tr>

<tr>
<td>-outfile</td>
<td>Output file name</td>
<td>Output file</td>
<td><i>&lt;*&gt;</i>.syco</td>
</tr>

<tr bgcolor="#FFFFCC">
<th align="left" colspan=2>Additional (Optional) qualifiers</th>
<th align="left">Allowed values</th>
<th align="left">Default</th>
</tr>

<tr>
<td colspan=4>(none)</td>
</tr>

<tr bgcolor="#FFFFCC">
<th align="left" colspan=2>Advanced (Unprompted) qualifiers</th>
<th align="left">Allowed values</th>
<th align="left">Default</th>
</tr>

<tr>
<td>-cfile</td>
<td>Codon usage file</td>
<td>Codon usage file in EMBOSS data path</td>
<td>&nbsp;</td>
</tr>

<tr>
<td>-window</td>
<td>Averaging window</td>
<td>Any integer value</td>
<td>30</td>
</tr>

<tr>
<td>-uncommon</td>
<td>Show common codon usage</td>
<td>Boolean value Yes/No</td>
<td>No</td>
</tr>

<tr>
<td>-minimum</td>
<td>Minimum value for a common codon</td>
<td>Number from 0.000 to 0.990</td>
<td>.15</td>
</tr>

<tr>
<td>-[no]plot</td>
<td>Produce plot</td>
<td>Toggle value Yes/No</td>
<td>Yes</td>
</tr>

</table>