KsPeaks ------- kspeaks is a simple way to get ks peaks. .. tabularcolumns:: column spec ================ ======================================================================== Parameters Standards and instructions ---------------- ------------------------------------------------------------------------ blockinfo Type: **file** | Default: **-** Output result of parameter `bi` ---------------- ------------------------------------------------------------------------ pvalue Type: **float** | Default: **0.05** Evaluate the compactness and uniqueness of collinear blocks, the range is 0-1, the better collinearity range is 0-0.2. ---------------- ------------------------------------------------------------------------ tandem Type:str | Default: true The criterion is that there are no more than 200 genes with a difference in genetic location. ---------------- ------------------------------------------------------------------------ block_length Type: **int** | Default: **5** Minimum length of collinear blocks. ---------------- ------------------------------------------------------------------------ ks_area Type: **str** | Default: **0,10** Show the range of ks. ---------------- ------------------------------------------------------------------------ multiple Type: **int** | Default: **1** The best number of homologous genes shown with red dots. ---------------- ------------------------------------------------------------------------ homo Type: **int [1-5]** Default: **1** Evaluate the ratio of the best homologous gene pairs of collinearity block, with a range of -1, 1. ---------------- ------------------------------------------------------------------------ fontsize Type: **str** Default: **9** The size of the font. ---------------- ------------------------------------------------------------------------ area Type: **str** Default: **0,3** Show the range of ks. ---------------- ------------------------------------------------------------------------ figsize Type: **int,int** | Default: **10,10** Control the proportion of the size of the saved picture. ---------------- ------------------------------------------------------------------------ savefig Type: {\*. **png**, \*. **pdf**, \*. **svg**} | Default: \*. **png** Save pictures support png, pdf, svg formats. ---------------- ------------------------------------------------------------------------ savefile Type: **file** | Default: \* **.csv** The resulting file. ================ ======================================================================== .. rubric:: Parameters Use command to enter the folder ``wgdi -kp ? >> total.conf`` Take out the parameter file.:: [kspeaks] blockinfo = block information pvalue = 0.2 tandem = true block_ length = int number ks_area = 0,10 multiple = 1 homo = 0,1 fontsize = 9 area = 0,3 figsize = 10,6.18 savefig = saving image savefile = ks medain savefile .. rubric:: Quick start After the parameters are modified properly, then run ``wgdi -kp total.conf`` .. rubric:: Example The original results are easily accessible at `wgdi-example `_ .. image :: _static/vvi161s_vvi161s.kspeaks.png :align: left