Dear all,
i have the attached data called "new" as data.frame. First I have only three
columns called Var1, Var2 and Freq and with bind I attached the column test for
a color specification (TEST DATA below).
With this plot function (require packages lattice)
dotplot(reorder(Var1, rep(score, cl.count)) ~ Freq | Var2,
data = DATA, origin = 0, type = c("p", "h"),
main = paste("The", top, "Top Ranking Features"),
xlab = xlab,
layout=c(cl.count,1), col=new["test"])
i want to plot the data.
Score indicated the scores which was calculated in a previous step and in my
case i extracted 40 score values (each for every row name). Attached below and
shown as a matrix. cl.count indicates 3 groups (RA, OA and JT)
Sadly, the colors are not in this way i like. If I look at the new[,"test"]
column only the rows 1,3,7,and 12 have the value "blue" and all other rows have
the value "green". But when I look at my created plot there are 12 lines with a
blue color. Can anybody explain me, why it is not possible to get the blue
color only in the rows where "blue" is indicated?
Glad to hear from you.
All the best
Peter
#### DATA#####
Var1 Var2 Freq
208869_s_at JT 10.6802376685463
203394_s_at JT 10.0160470327077
201533_at JT 9.58401500697783
216520_s_at JT 9.07764840614892
210999_s_at JT 9.00219110130877
212284_x_at JT 8.62193952504277
203752_s_at JT 8.69193736253539
203574_at JT 8.41492571590263
219629_at JT 8.19111292436667
201473_at JT 8.035082989931
210592_s_at JT 8.00639829720742
200768_s_at JT 7.88012483915651
201565_s_at JT 7.89885432096935
AFFX-r2-P1-cre-3_at JT 7.86490927895639
202014_at JT 7.69345791769434
212671_s_at JT -7.43350555284605
203395_s_at JT 7.51127977823914
208980_s_at JT 7.52175408445448
207783_x_at JT 7.31954223019292
215446_s_at JT -6.28236730203077
203034_s_at JT 7.24582647671987
211943_x_at JT 7.22247828112639
203974_at JT -6.84217612309489
201810_s_at JT 7.0727443704914
201693_s_at JT 7.11350154823655
213614_x_at JT 7.07586402329325
AFFX-CreX-5_at JT 7.05274590106307
201798_s_at JT -6.98858491240942
212869_x_at JT 6.97833756793094
201531_at JT 6.96660504363297
201170_s_at JT 6.90904695259236
200886_s_at JT -6.92645789612039
AFFX-r2-P1-cre-5_at JT 6.85399276205727
201429_s_at JT 6.68557384216737
212665_at JT 6.75579868986925
208695_s_at JT 6.8087149011011
211654_x_at JT -6.7426888322764
209927_s_at JT -6.74856557366229
203107_x_at JT 6.72120597236789
211296_x_at JT 6.60226581063165
208869_s_at OA -3.73983541027906
203394_s_at OA -3.29203821581412
201533_at OA -3.2383756900468
216520_s_at OA -4.59979375515969
210999_s_at OA -5.10853597491871
212284_x_at OA -5.84925048581651
203752_s_at OA -4.54427623838229
203574_at OA -2.59882534850623
219629_at OA -4.35550869055387
201473_at OA -3.15685663855675
210592_s_at OA -4.52611461089035
200768_s_at OA -2.76833454650619
201565_s_at OA -3.80972141262264
AFFX-r2-P1-cre-3_at OA -3.53240421347696
202014_at OA -2.60784960582222
212671_s_at OA 1.68584117381632
203395_s_at OA -2.27910272551108
208980_s_at OA -3.66266591800146
207783_x_at OA -3.93093352561262
215446_s_at OA 6.26626194024723
203034_s_at OA -3.84606488854982
211943_x_at OA -3.30831181470312
203974_at OA 1.17068337099947
201810_s_at OA -2.07855331860079
201693_s_at OA -2.74740330465003
213614_x_at OA -3.03851670866666
AFFX-CreX-5_at OA -3.46221400689819
201798_s_at OA 4.03100733638473
212869_x_at OA -3.97300711584927
201531_at OA -2.96907452702537
201170_s_at OA -2.70131412682545
200886_s_at OA 2.96401783822817
AFFX-r2-P1-cre-5_at OA -2.89903293592039
201429_s_at OA -4.35557947874114
212665_at OA -2.39194028704917
208695_s_at OA -3.35547642329559
211654_x_at OA 2.68663713811722
209927_s_at OA 3.34341605878591
203107_x_at OA -3.66321419312914
211296_x_at OA -4.25932160076237
208869_s_at RA -6.52772554526193
203394_s_at RA -6.32419887021955
201533_at RA -5.96832724224416
216520_s_at RA -4.21160115876773
210999_s_at RA -3.662138171127
212284_x_at RA -2.60782479125985
203752_s_at RA -3.90104095781671
203574_at RA -5.47027470876589
219629_at RA -3.60753898792399
201473_at RA -4.58816673507709
210592_s_at RA -3.27334582039087
200768_s_at RA -4.80784295112116
201565_s_at RA -3.8459928330509
AFFX-r2-P1-cre-3_at RA -4.07489406787897
202014_at RA -4.7832177524091
212671_s_at RA 5.40590792815972
203395_s_at RA -4.92107150759781
208980_s_at RA -3.62962656459378
207783_x_at RA -3.18712183828209
215446_s_at RA 0.0151477360559071
203034_s_at RA -3.19761157077928
211943_x_at RA -3.68142990571529
203974_at RA 5.33426547049511
201810_s_at RA -4.69723616790538
201693_s_at RA -4.10648979370521
213614_x_at RA -3.79728641367864
AFFX-CreX-5_at RA -3.37703866352978
201798_s_at RA 2.78171984514488
212869_x_at RA -2.8266333324756
201531_at RA -3.7598371247344
201170_s_at RA -3.95754079263605
200886_s_at RA 3.72683314668998
AFFX-r2-P1-cre-5_at RA -3.71979768994025
201429_s_at RA -2.19145276606072
212665_at RA -4.10438313399814
208695_s_at RA -3.24790872151558
211654_x_at RA 3.81487862974044
209927_s_at RA 3.20267913105723
203107_x_at RA -2.87616341412488
211296_x_at RA -2.20363261389773
####### TEST DATA ########
Var1 Var2 Freq test
208869_s_at JT 10.6802376685463 blue
203394_s_at JT 10.0160470327077 green
201533_at JT 9.58401500697783 blue
216520_s_at JT 9.07764840614892 green
210999_s_at JT 9.00219110130877 green
212284_x_at JT 8.62193952504277 green
203752_s_at JT 8.69193736253539 blue
203574_at JT 8.41492571590263 green
219629_at JT 8.19111292436667 green
201473_at JT 8.035082989931 green
210592_s_at JT 8.00639829720742 green
200768_s_at JT 7.88012483915651 blue
201565_s_at JT 7.89885432096935 green
AFFX-r2-P1-cre-3_at JT 7.86490927895639 green
202014_at JT 7.69345791769434 green
212671_s_at JT -7.43350555284605 green
203395_s_at JT 7.51127977823914 green
208980_s_at JT 7.52175408445448 green
207783_x_at JT 7.31954223019292 green
215446_s_at JT -6.28236730203077 green
203034_s_at JT 7.24582647671987 green
211943_x_at JT 7.22247828112639 green
203974_at JT -6.84217612309489 green
201810_s_at JT 7.0727443704914 green
201693_s_at JT 7.11350154823655 green
213614_x_at JT 7.07586402329325 green
AFFX-CreX-5_at JT 7.05274590106307 green
201798_s_at JT -6.98858491240942 green
212869_x_at JT 6.97833756793094 green
201531_at JT 6.96660504363297 green
201170_s_at JT 6.90904695259236 green
200886_s_at JT -6.92645789612039 green
AFFX-r2-P1-cre-5_at JT 6.85399276205727 green
201429_s_at JT 6.68557384216737 green
212665_at JT 6.75579868986925 green
208695_s_at JT 6.8087149011011 green
211654_x_at JT -6.7426888322764 green
209927_s_at JT -6.74856557366229 green
203107_x_at JT 6.72120597236789 green
211296_x_at JT 6.60226581063165 green
208869_s_at OA -3.73983541027906 green
203394_s_at OA -3.29203821581412 green
201533_at OA -3.2383756900468 green
216520_s_at OA -4.59979375515969 green
210999_s_at OA -5.10853597491871 green
212284_x_at OA -5.84925048581651 green
203752_s_at OA -4.54427623838229 green
203574_at OA -2.59882534850623 green
219629_at OA -4.35550869055387 green
201473_at OA -3.15685663855675 green
210592_s_at OA -4.52611461089035 green
200768_s_at OA -2.76833454650619 green
201565_s_at OA -3.80972141262264 green
AFFX-r2-P1-cre-3_at OA -3.53240421347696 green
202014_at OA -2.60784960582222 green
212671_s_at OA 1.68584117381632 green
203395_s_at OA -2.27910272551108 green
208980_s_at OA -3.66266591800146 green
207783_x_at OA -3.93093352561262 green
215446_s_at OA 6.26626194024723 green
203034_s_at OA -3.84606488854982 green
211943_x_at OA -3.30831181470312 green
203974_at OA 1.17068337099947 green
201810_s_at OA -2.07855331860079 green
201693_s_at OA -2.74740330465003 green
213614_x_at OA -3.03851670866666 green
AFFX-CreX-5_at OA -3.46221400689819 green
201798_s_at OA 4.03100733638473 green
212869_x_at OA -3.97300711584927 green
201531_at OA -2.96907452702537 green
201170_s_at OA -2.70131412682545 green
200886_s_at OA 2.96401783822817 green
AFFX-r2-P1-cre-5_at OA -2.89903293592039 green
201429_s_at OA -4.35557947874114 green
212665_at OA -2.39194028704917 green
208695_s_at OA -3.35547642329559 green
211654_x_at OA 2.68663713811722 green
209927_s_at OA 3.34341605878591 green
203107_x_at OA -3.66321419312914 green
211296_x_at OA -4.25932160076237 green
208869_s_at RA -6.52772554526193 green
203394_s_at RA -6.32419887021955 green
201533_at RA -5.96832724224416 green
216520_s_at RA -4.21160115876773 green
210999_s_at RA -3.662138171127 green
212284_x_at RA -2.60782479125985 green
203752_s_at RA -3.90104095781671 green
203574_at RA -5.47027470876589 green
219629_at RA -3.60753898792399 green
201473_at RA -4.58816673507709 green
210592_s_at RA -3.27334582039087 green
200768_s_at RA -4.80784295112116 green
201565_s_at RA -3.8459928330509 green
AFFX-r2-P1-cre-3_at RA -4.07489406787897 green
202014_at RA -4.7832177524091 green
212671_s_at RA 5.40590792815972 green
203395_s_at RA -4.92107150759781 green
208980_s_at RA -3.62962656459378 green
207783_x_at RA -3.18712183828209 green
215446_s_at RA 0.0151477360559071 green
203034_s_at RA -3.19761157077928 green
211943_x_at RA -3.68142990571529 green
203974_at RA 5.33426547049511 green
201810_s_at RA -4.69723616790538 green
201693_s_at RA -4.10648979370521 green
213614_x_at RA -3.79728641367864 green
AFFX-CreX-5_at RA -3.37703866352978 green
201798_s_at RA 2.78171984514488 green
212869_x_at RA -2.8266333324756 green
201531_at RA -3.7598371247344 green
201170_s_at RA -3.95754079263605 green
200886_s_at RA 3.72683314668998 green
AFFX-r2-P1-cre-5_at RA -3.71979768994025 green
201429_s_at RA -2.19145276606072 green
212665_at RA -4.10438313399814 green
208695_s_at RA -3.24790872151558 green
211654_x_at RA 3.81487862974044 green
209927_s_at RA 3.20267913105723 green
203107_x_at RA -2.87616341412488 green
211296_x_at RA -2.20363261389773 green
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