[R] converting to data.frame

2009-10-15 Thread ms.com

dear allI have a data set with three types (Tree, Sapling, Seedling). I have 
estimated the correlation values. now i need to bring all the correlation 
values in a table like the one i have shown in attached file with R codes.could 
you please give me idea on this problem
thanking you
MSNepal
  
_
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http://clk.atdmt.com/GBL/go/177141664/direct/01/read.table()
colnames(c.df)
[1] "id"  "code""long""lat" "elev""age_obs" "year"   
 [8] "Est_age" "Ht_cm"   "BD_mm"   "CDA_cm"  "CDB_cm"  "growth"  "type"  

### Correlation estimation
cor(age_obs,Ht_cm)
cor(age_obs[type=='SD'],Ht_cm[type=='SD'])  #seedling
cor(age_obs[type=='SPB'],Ht_cm[type=='SPB'])#sapling
cor(age_obs[type=='T'],Ht_cm[type=='T'])#tree

cor(age_obs,BD_mm)
cor(age_obs[type=='SD'],BD_mm[type=='SD'])
cor(age_obs[type=='SPB'],BD_mm[type=='SPB'])
cor(age_obs[type=='T'],BD_mm[type=='T'])

cor(age_obs,CDA_cm)
cor(age_obs[type=='SD'],CDA_cm[type=='SD'])
cor(age_obs[type=='SPB'],CDA_cm[type=='SPB'])
cor(age_obs[type=='T'],CDA_cm[type=='T'])

cor(age_obs,CDB_cm)
cor(age_obs[type=='SD'],CDB_cm[type=='SD'])
cor(age_obs[type=='SPB'],CDB_cm[type=='SPB'])
cor(age_obs[type=='T'],CDB_cm[type=='T'])

cor(Ht_cm,BD_mm)
cor(Ht_cm[type=='SD'],BD_mm[type=='SD'])
cor(Ht_cm[type=='SPB'],BD_mm[type=='SPB'])
cor(Ht_cm[type=='T'],BD_mm[type=='T'])

cor(Ht_cm,CDA_cm)
cor(Ht_cm[type=='SD'],CDA_cm[type=='SD'])
cor(Ht_cm[type=='SPB'],CDA_cm[type=='SPB'])
cor(Ht_cm[type=='T'],CDA_cm[type=='T'])

cor(Ht_cm,CDB_cm)
cor(Ht_cm[type=='SD'],CDB_cm[type=='SD'])
cor(Ht_cm[type=='SPB'],CDB_cm[type=='SPB'])
cor(Ht_cm[type=='T'],CDB_cm[type=='T'])

cor(BD_mm,CDA_cm)
cor(BD_mm[type=='SD'],CDA_cm[type=='SD'])
cor(BD_mm[type=='SPB'],CDA_cm[type=='SPB'])
cor(BD_mm[type=='T'],CDA_cm[type=='T'])

cor(BD_mm,CDB_cm)
cor(BD_mm[type=='SD'],CDB_cm[type=='SD'])
cor(BD_mm[type=='SPB'],CDB_cm[type=='SPB'])
cor(BD_mm[type=='T'],CDB_cm[type=='T'])

cor(CDA_cm,CDB_cm)
cor(CDA_cm[type=='SD'],CDB_cm[type=='SD'])
cor(CDA_cm[type=='SPB'],CDB_cm[type=='SPB'])
cor(CDA_cm[type=='T'],CDB_cm[type=='T'])

cor(age_obs,Est_age,use="pairwise.complete.obs")
cor(age_obs[type=='SD'],Est_age[type=='SD'],use="pairwise.complete.obs")
cor(age_obs[type=='SPB'],Est_age[type=='SPB'],use="pairwise.complete.obs")
cor(age_obs[type=='T'],Est_age[type=='T'],use="pairwise.complete.obs")


###   table looks like below one

parameters  combinedseedlingsapling 
tree
age_obs Vs Ht_cm
age_obs Vs BD_mm
age_obs Vs CDA_cm   
age_obs Vs CDB_cm   
Ht_cm   Vs BD_mm
Ht_cm   Vs CDA_cm   
Ht_cm   Vs CDB_cm   
BD_mm   Vs CDA_cm   
BD_mm   Vs CDB_cm   
CDA_cm  Vs CDB_cm   
age_obs Vs est_age  










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[R] converting to data.frame

2009-10-15 Thread ms.com


> dear all

I have a data set with three types (Tree, Sapling, Seedling). I have estimated 
the correlation values. now i need to bring all the correlation values in a 
table like the one i have shown in attached file with R codes.could you please 
give me idea on this problem
>
thanking you


MS
Nepal

  
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http://clk.atdmt.com/GBL/go/171222985/direct/01/read.table()
colnames(c.df)
[1] "id"  "code""long""lat" "elev""age_obs" "year"   
 [8] "Est_age" "Ht_cm"   "BD_mm"   "CDA_cm"  "CDB_cm"  "growth"  "type"  

### Correlation estimation
cor(age_obs,Ht_cm)
cor(age_obs[type=='SD'],Ht_cm[type=='SD'])  #seedling
cor(age_obs[type=='SPB'],Ht_cm[type=='SPB'])#sapling
cor(age_obs[type=='T'],Ht_cm[type=='T'])#tree

cor(age_obs,BD_mm)
cor(age_obs[type=='SD'],BD_mm[type=='SD'])
cor(age_obs[type=='SPB'],BD_mm[type=='SPB'])
cor(age_obs[type=='T'],BD_mm[type=='T'])

cor(age_obs,CDA_cm)
cor(age_obs[type=='SD'],CDA_cm[type=='SD'])
cor(age_obs[type=='SPB'],CDA_cm[type=='SPB'])
cor(age_obs[type=='T'],CDA_cm[type=='T'])

cor(age_obs,CDB_cm)
cor(age_obs[type=='SD'],CDB_cm[type=='SD'])
cor(age_obs[type=='SPB'],CDB_cm[type=='SPB'])
cor(age_obs[type=='T'],CDB_cm[type=='T'])

cor(Ht_cm,BD_mm)
cor(Ht_cm[type=='SD'],BD_mm[type=='SD'])
cor(Ht_cm[type=='SPB'],BD_mm[type=='SPB'])
cor(Ht_cm[type=='T'],BD_mm[type=='T'])

cor(Ht_cm,CDA_cm)
cor(Ht_cm[type=='SD'],CDA_cm[type=='SD'])
cor(Ht_cm[type=='SPB'],CDA_cm[type=='SPB'])
cor(Ht_cm[type=='T'],CDA_cm[type=='T'])

cor(Ht_cm,CDB_cm)
cor(Ht_cm[type=='SD'],CDB_cm[type=='SD'])
cor(Ht_cm[type=='SPB'],CDB_cm[type=='SPB'])
cor(Ht_cm[type=='T'],CDB_cm[type=='T'])

cor(BD_mm,CDA_cm)
cor(BD_mm[type=='SD'],CDA_cm[type=='SD'])
cor(BD_mm[type=='SPB'],CDA_cm[type=='SPB'])
cor(BD_mm[type=='T'],CDA_cm[type=='T'])

cor(BD_mm,CDB_cm)
cor(BD_mm[type=='SD'],CDB_cm[type=='SD'])
cor(BD_mm[type=='SPB'],CDB_cm[type=='SPB'])
cor(BD_mm[type=='T'],CDB_cm[type=='T'])

cor(CDA_cm,CDB_cm)
cor(CDA_cm[type=='SD'],CDB_cm[type=='SD'])
cor(CDA_cm[type=='SPB'],CDB_cm[type=='SPB'])
cor(CDA_cm[type=='T'],CDB_cm[type=='T'])

cor(age_obs,Est_age,use="pairwise.complete.obs")
cor(age_obs[type=='SD'],Est_age[type=='SD'],use="pairwise.complete.obs")
cor(age_obs[type=='SPB'],Est_age[type=='SPB'],use="pairwise.complete.obs")
cor(age_obs[type=='T'],Est_age[type=='T'],use="pairwise.complete.obs")


###   table looks like below one

parameters  combinedseedlingsapling 
tree
age_obs Vs Ht_cm
age_obs Vs BD_mm
age_obs Vs CDA_cm   
age_obs Vs CDB_cm   
Ht_cm   Vs BD_mm
Ht_cm   Vs CDA_cm   
Ht_cm   Vs CDB_cm   
BD_mm   Vs CDA_cm   
BD_mm   Vs CDB_cm   
CDA_cm  Vs CDB_cm   
age_obs Vs est_age  










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[R] slope calculation

2009-10-21 Thread ms.com

Dear all

I am new R user, and trying to learn more.

I am doing linear regression analysis in R with my data. I am trying to find 
the way to calculate the slope value (coefficient of x) to degree of slope. 
Please give me idea on this.

Thanking you in anticipation

Warm regardMS

  
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[R] defining number of samples

2009-10-25 Thread ms.com

dear all
i am trying to perform t-test (t.test) in R
here i am putting the commands and answer i got
> t.test(Ht_cm[from_treeline=='above'][type=='SD'],Ht_cm[from_treeline=='below'][type=='SD'])
Welch Two Sample t-test
data:  Ht_cm[from_treeline == "above"][type == "SD"] and Ht_cm[from_treeline == 
"below"][type == "SD"] t = 1.4181, df = 159.203, p-value = 0.1581alternative 
hypothesis: true difference in means is not equal to 0 95 percent confidence 
interval: -1.547018  9.426110 sample estimates:mean of x mean of y  21.34627  
17.40672 
> t.test(Ht_cm[from_treeline=='above'][type=='SPB'],Ht_cm[from_treeline=='below'][type=='SPB'])Error
>  in t.test.default(Ht_cm[from_treeline == "above"][type == "SPB"],  :   not 
> enough 'x' observations> 
its ok with the first command, but it says 'not enough 'x' observations', in 
the later case i have 31 samples.
how can i do t.test with my day for latter case, will it work by defining the 
number of samples, if yes, how can i define it. 

thanking you in anticipation


regard
MS
Nepal
  
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[R] Sandard deviation calculation

2009-10-26 Thread ms.com

Dear all
I am trying to learn R
I was trying to calculate standard deviation 
here are the commands and outputs in R
> sd(Ht_cm[type=='SD'])[1] 3.283605> sd(Ht_cm[from_treeline=='above'])[1] 
> 16.83289> sd(Ht_cm[type=='SD'][from_treeline=='above'])[1] NA> 

the problem is that, i could not understand why the third command could not 
give any result. 

please help me out 

thanking you 

Regard
MS
Nepal 
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[R] x11(title=' ')

2009-10-28 Thread ms.com

Dear all
I was trying to put a title for my plot, but i got this result,

> x11(width=10,height=5,title="seedling");par(mfrow=c(1,2))Error in x11(width = 
> 10, height = 5, title = "seedling") :   unused argument(s) (title = 
> "seedling")> 
The title is not taking

How can i give a title for the plot (where in need to make 2 plots within a 
window of x11() )

thanking you in anticipation

Warm regard
MS
Nepal 
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Re: [R] x11(title=' ')

2009-10-29 Thread ms.com

Dear all
sorry that i am late to reply for the question about my OS, I am using MS 
Windows XP 2003 OS
thanking you
Warm RegardMSNepal



> Date: Wed, 28 Oct 2009 22:20:50 +1100
> From: j...@bitwrit.com.au
> CC: r-help@r-project.org
> Subject: Re: [R] x11(title='  ')
> 
> On 10/28/2009 09:51 PM, Prof Brian Ripley wrote:
> > ...
> > Are you perchance x11() on Windows, when you should be using 
> > windows()?  The posting guide asked you to tell us your OS, amongst 
> > other things 
> I say, my dear professor, if this "MS" chap who has used a Microsoft 
> email client and a Microsoft email service turns out to be using Linux, 
> he's covered his tracks pretty well.
> 
> Jim
> 
> __
> R-help@r-project.org mailing list
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> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
  
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[R] z-test with NAs

2009-11-13 Thread ms.com

Dear all
I am learning R
I am doing Z-test with package 'BSDA'
here is my syntax and result:

> sdgr.ztest<-z.test(growth[type=='SD'& from_treeline=='above'], +   
> growth[type=='SD'& from_treeline=='below'],alternative = "two.sided", +   mu 
> = 0, sigma.x =(sd(growth[type=='SD'& from_treeline=='above'],na.rm = T)), +   
> sigma.y =(sd(growth[type=='SD'& from_treeline=='below'],na.rm = T)), 
> conf.level = 0.95)> sdgr.ztest # Z-test for Seedling Growth above and below 
> treeline
Two-sample z-Test
data:  growth[type == "SD" & from_treeline == "above"] and growth[type == "SD" 
& from_treeline == "below"] z = NA, p-value = NAalternative hypothesis: true 
difference in means is not equal to 0 95 percent confidence interval: NA NA 
sample estimates:mean of x mean of yNANA 

I don't understand where my syntax went wrong. Similar syntax works for sapling 
case, but not for seedling case. is it due to the NAs in my data set for 
seedlings?, as the package says, NAs are allowed but will be removed during 
analysis, i don't think it is the problem.
i am attaching the data file too. and one more information, I am using MS 
Windows 2003 OS. 
Please guide me, how can i go ahead.

Thanking you in anticipation 

Warm regard
MS
Madan
 

  
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a=TEXT_MFESRP_Local_MapsMenu_Resturants_1x1id,code,growth,from_treeline,type
1,SD1,1.73,below,SD
2,SD2,1.12,above,SD
3,SD3,1.6,above,SD
4,SD4,1.66,above,SD
5,SD5,1.65,below,SD
6,SD6,1.43,above,SD
7,SD7,,above,SD
9,SD9,1.1,below,SD
10,SD10,1.44,above,SD
11,SD11,1.48,above,SD
12,SD12,2.25,above,SD
13,SD13,,above,SD
14,SD14,1.5,above,SD
15,SD15,,above,SD
16,SD16,1.06,above,SD
17,SD17,1.5,above,SD
18,SD18,4.17,below,SD
19,SD19,2.02,below,SD
20,SD20,1.38,above,SD
21,SD21,2,below,SD
22,SD22,1.41,above,SD
23,SD23,1.9,above,SD
24,SD24,1.7,above,SD
25,SD25,2.08,above,SD
26,SD26,1.92,below,SD
27,SD27,1.55,below,SD
28,SD28,1.48,below,SD
29,SD29,1.33,below,SD
30,SD30,1.5,above,SD
31,SD31,1.6,below,SD
32,SD32,1.24,below,SD
33,SD33,1.56,above,SD
34,SD34,1.58,below,SD
35,SD35,1.43,above,SD
36,SD36,1.3,above,SD
37,SD37,2.12,below,SD
38,SD38,1.63,below,SD
39,SD39,1.3,above,SD
40,SD40,1.16,below,SD
41,SD41,1.13,below,SD
42,SD42,1.43,below,SD
43,SD43,1.07,below,SD
44,SD44,1.25,below,SD
45,SD45,1.18,below,SD
46,SD46,1.17,above,SD
47,SD47,1,below,SD
48,SD48,1.43,above,SD
49,SD49,1.18,above,SD
50,SD50,1.17,below,SD
51,SD51,1.78,below,SD
52,SD52,1.67,above,SD
53,SD53,1,above,SD
54,SD54,1.8,below,SD
55,SD55,0.8,above,SD
56,SD56,0.95,above,SD
57,SD57,1.8,below,SD
58,SD58,,above,SD
59,SD59,,below,SD
60,SD60,,below,SD
61,SD61,,below,SD
62,SD62,,below,SD
63,SD63,,below,SD
64,SD64,,below,SD
65,SD65,0.93,below,SD
66,SD66,1.35,below,SD
67,SD67,1.33,below,SD
68,SD68,1.09,below,SD
69,SD69,1.41,below,SD
70,SD70,1.3,below,SD
71,SD71,1.2,below,SD
72,SD72,1.27,above,SD
73,SD73,0.7,below,SD
74,SD74,1.05,below,SD
75,SD75,1.68,below,SD
76,SD76,1.57,below,SD
77,SD77,1.22,above,SD
78,SD78,1.46,below,SD
79,SD79,2.32,below,SD
80,SD80,2.7,below,SD
81,SD81,1.57,above,SD
82,SD82,1.53,below,SD
83,SD83,1.63,below,SD
84,SD84,1.23,above,SD
85,SD85,1.77,below,SD
86,SD86,1.53,below,SD
87,SD87,1.39,below,SD
88,SD88,1.18,above,SD
89,SD89,1.85,below,SD
90,SD90,1.82,below,SD
91,SD91,,below,SD
92,SD92,1.74,below,SD
93,SD93,1.76,below,SD
94,SD94,1.16,below,SD
95,SD95,,below,SD
96,SD96,1.2,below,SD
97,SD97,1.42,below,SD
98,SD98,0.95,below,SD
99,SD99,2.43,below,SD
100,SD100,,below,SD
101,SD101,1.48,below,SD
102,SD102,1.33,below,SD
103,SD103,,below,SD
104,SD104,0.94,below,SD
105,SD105,,below,SD
106,SD106,1.15,below,SD
107,SD107,,below,SD
108,SD108,1.87,below,SD
109,SD109,1.23,below,SD
110,SD110,1.83,below,SD
111,SD111,1.47,below,SD
112,SD112,,below,SD
113,SD113,1.28,below,SD
114,SD114,,below,SD
115,SD115,1.57,below,SD
116,SD116,,below,SD
117,SD117,1.75,below,SD
118,SD118,1.8,below,SD
119,SD119,1.49,below,SD
120,SD120,1.54,below,SD
1,SPB1,2.19,above,SPB
2,SPB2,1.66,above,SPB
3,SPB3,1.78,above,SPB
4,SPB4,1.73,above,SPB
5,SPB5,8.63,above,SPB
6,SPB6,1.96,below,SPB
7,SPB7,5.17,above,SPB
8,SPB8,3.5,above,SPB
9,SPB9,2.78,above,SPB
10,SPB10,5.5,above,SPB
11,SPB11,2.75,below,SPB
12,SPB12,3,above,SPB
13,SPB13,4.71,above,SPB
14,SPB14,4.86,above,SPB
15,SPB15,4.63,below,SPB
16,SPB16,1.92,below,SPB
17,SPB17,3,below,SPB
18,SPB18,1.48,below,SPB
19,SPB19,2.35,below,SPB
20,SPB20,2.9,below,SPB
21,SPB21,2.35,below,SPB
22,SPB22,2.11,above,SPB
23,SPB23,1.92,below,SPB
24,SPB24,19.38,below,SPB
25,SPB25,2.33,above,SPB
27,SPB27,3.17,below,SPB
28,SPB28,1.73,below,SPB
29,SPB29,2.31,below,SPB
30,SPB30,1.9,below,SPB
31,SPB31,2.23,below,SPB
32,SPB32,2.04,below,SPB
33,SPB33,2.38,above,SPB
34,SPB34,4.9,above,SPB
35,SPB35,5.96,below,SPB
36,SPB36,1.77,below,SPB
37,SPB37,2.64,above,SPB
38,SPB38,4.01,above,SPB
39,SPB39,1.94,below,SPB
40,SPB40,1.8,above,SPB
41,SPB41,14.14,below,SPB
42,SPB

[R] optima in unimode

2009-05-28 Thread ms.com

Dear all
i could not estimate the optima value or range value in unimodal plot in glm
please help me out

thanking you 

regard
madan

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[R] montly mean temp plot

2009-06-02 Thread ms.com

Dear all
i got a problem in monthly mean temperature. here i am attaching the data set 
as well as the plot i got with the following command
plot(month,type='n')
plot(month,X1999)

this command gave the plot where the month names are in alphabetic order, i 
want the plot in monthly sequence
could you please suggest me how can i solve my problem?

thanking you

regard
madan

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month   196719681969197019711972197319741975
1976197719781979198019811982198319841985
1986198719881989199019911992199319941995
1996199719981999200020012002200320042005
20062007
Janaury 13.312.912.711.914.513.618  DNA 11.5
11.912.911.413.712.512.314.511.5DNA 13.9
14.3DNA 14.812.716.213  13.513.315.412.7
14.212.714.415  14.614.213.914.713.613.4
18.214.6
Frebuary15  15.617.313.814.414.516.3DNA 
14.315.414.914  14.614.116.513.214.2DNA 
15.115.9DNA 16.715.814.317.613.615.915.2
14.316.113.616.420  14.517.617.215.315.9
17.519.113.7
March   16.819.119.118.818.620.219.7DNA 19.5
18.919.716.718.918.217.817.719.3DNA 21.1
18.9DNA 19.118.817  19.521.817.719.419.7
20.319  17.721.719.119.719.518.421.620  
20  18.8
April   DNA 22.421.921.618.521.523.7DNA 23.6
21.420.120.521.923.719.721.620.421.522.8
21.520.922.522.821.222.224  21.322.423.3
22.919.321.525  22.722.521.622.621.922.7
21.722.6
May 23.923.322.623.120.823.121.5DNA 23.6
21.220.421.924  22.521.823.821.522  22.7
21.624.423.623.722.524  22.423.124.125.6
24.623.323.724.223.823  22.623.623.623.4
23.324
June24.722.123  22.122.423.622.2DNA 23.4
22  22.823  23.422.423.423.324.423.525  
23.922.923.724  25  23.924.924.324.623.8
23.724.325.824.124.124.223.924.123.924.7
24.223.6
JulyDNA 24  22.722.322.423  22.9DNA 22.1
22.622.922.422.922.822.823.523.922.422.6
23.122.723.923.223.924.523.824.325  23.6
23.224.523.924  24.524.623.824  23.223.9
24.623.5
August  24.722.622.422.821.822.822.6DNA 22.8
21.322.723.222.622.623.623.623.623.925.1
24  22.323.723.924.124  23.823.724.624.2
23.824.123.323.323.924.323.824.224.524.3
24.524.1
Spetemberr  23.823.121.822  21.921.521.5DNA 
20.921.222.121.521.522.122.622.523.121.5
22.122.323  23.523  23.623.623.623.123.6
23.323.623.224.223.722.823.823  23.623  
24.423.523
October 21.119.319.219.820.520.219.4DNA 20.4
19.318.819.719  19.920.919.7DNA 21.819.8
20.420.622.322  20.822.120.821.921.521.8
21.619.823.421.722.122  21.122.120.621.6
22.221.9
November15.917.116.516  16.717.816.3DNA 
15.516.416.615.717.717.317.316.417.316.9
16.716.918.318.117.119.317  17.518  17.4
18.318.618.120  18.618.418.918.418.417  
18.218.1DNA
December15.714.513.915.614  17.213.1DNA 
13.415  12.615.313.115.314  14.215  DNA 
15.8DNA 16.215.414.815.814.714.316.115.1
14.715.814.416.515.415.315  15.314.915.3
16.415.716
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[R] threat analysis

2009-05-06 Thread ms.com

dear all
i am in great need of threat analysis technique, could anyone give me 
information about this method in R, which package does the Threat Analysis (in 
animals)

thanking you 

Ms.com

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[R] upgrade R version

2009-01-11 Thread ms.com












dear all contributors
i am new R user
i want to upgrade my R version from 2.7.1 to 2.8.1
i tried myself, but i could not do it as R is different from other software
could anyone guide me please

warm regard
madan 
student 
University of Bergen


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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.